Back to Long Tests report for BioC 3.23

This page was generated on 2026-05-23 23:55 -0400 (Sat, 23 May 2026).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.4 LTS)x86_644.6.0 RC (2026-04-17 r89917) -- "Because it was There" 4995
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 6/28HostnameOS / ArchCHECK
biodbChebi 1.18.0  (landing page)
Pierrick Roger
Snapshot Date: 2026-05-23 09:55 -0400 (Sat, 23 May 2026)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: RELEASE_3_23
git_last_commit: 23856c9
git_last_commit_date: 2026-04-28 08:57:02 -0400 (Tue, 28 Apr 2026)
nebbiolo1Linux (Ubuntu 24.04.4 LTS) / x86_64  ERROR  

CHECK results for biodbChebi on nebbiolo1

To the developers/maintainers of the biodbChebi 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: biodbChebi
Version: 1.18.0
Command: /home/biocbuild/bbs-3.23-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 biodbChebi_1.18.0.tar.gz
StartedAt: 2026-05-23 16:01:06 -0400 (Sat, 23 May 2026)
EndedAt: 2026-05-23 16:02:18 -0400 (Sat, 23 May 2026)
EllapsedTime: 72.0 seconds
RetCode: 1
Status:   ERROR  
CheckDir: biodbChebi.Rcheck
Warnings: NA

Tests output

biodbChebi.Rcheck/tests/testthat.Rout.fail


R version 4.6.0 RC (2026-04-17 r89917) -- "Because it was There"
Copyright (C) 2026 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(biodbChebi)
Warning message:
In fun(libname, pkgname) :
  Package 'biodbChebi' is deprecated and will be removed from
  Bioconductor version 3.24
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2026-05-23 16:01:45.839][biodb::testContext]
biodb.INFO [2026-05-23 16:01:45.841][biodb::testContext] ********************************************************************************
biodb.INFO [2026-05-23 16:01:45.842][biodb::testContext] Test context - Generic long tests
biodb.INFO [2026-05-23 16:01:45.843][biodb::testContext] ********************************************************************************
biodb.INFO [2026-05-23 16:01:45.844][biodb::testContext]
biodb.INFO [2026-05-23 16:01:45.850][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.20.0.
biodb.DEBUG[2026-05-23 16:01:45.852][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.23-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2026-05-23 16:01:45.858][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-05-23 16:01:45.859][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2026-05-23 16:01:45.860][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2026-05-23 16:01:45.861][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:45.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:45.863][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:45.864][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2026-05-23 16:01:45.880][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2026-05-23 16:01:45.881][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:45.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:45.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:45.884][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2026-05-23 16:01:45.885][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2026-05-23 16:01:45.886][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:45.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:45.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:45.889][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2026-05-23 16:01:45.890][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2026-05-23 16:01:45.891][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2026-05-23 16:01:45.891][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:45.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:45.893][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[2026-05-23 16:01:45.894][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2026-05-23 16:01:45.895][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2026-05-23 16:01:45.896][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2026-05-23 16:01:45.897][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:45.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:45.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:45.900][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2026-05-23 16:01:45.901][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2026-05-23 16:01:45.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:45.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:45.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:45.904][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2026-05-23 16:01:45.905][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2026-05-23 16:01:45.906][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2026-05-23 16:01:45.907][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:45.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:45.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:45.910][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2026-05-23 16:01:45.911][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2026-05-23 16:01:45.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:45.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:45.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:45.915][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2026-05-23 16:01:45.916][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2026-05-23 16:01:45.917][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2026-05-23 16:01:45.917][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:45.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:45.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:45.920][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2026-05-23 16:01:45.921][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2026-05-23 16:01:45.922][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2026-05-23 16:01:45.923][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2026-05-23 16:01:45.924][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2026-05-23 16:01:45.925][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2026-05-23 16:01:45.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:45.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:45.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:45.929][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2026-05-23 16:01:45.930][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2026-05-23 16:01:45.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:45.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:45.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:45.933][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2026-05-23 16:01:45.934][self$set] Set key entries.sep to "|".
biodb.DEBUG[2026-05-23 16:01:45.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:45.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:45.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:45.938][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2026-05-23 16:01:45.939][self$set] Set key offline to FALSE.
biodb.DEBUG[2026-05-23 16:01:45.940][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:45.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:45.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:45.942][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2026-05-23 16:01:45.943][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2026-05-23 16:01:45.944][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2026-05-23 16:01:45.945][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:45.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:45.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:45.953][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2026-05-23 16:01:45.954][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2026-05-23 16:01:45.958][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2026-05-23 16:01:45.959][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:45.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:45.960][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:45.961][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2026-05-23 16:01:45.962][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2026-05-23 16:01:45.963][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2026-05-23 16:01:45.964][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:45.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:45.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:45.969][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2026-05-23 16:01:46.001][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-05-23 16:01:46.016][self$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[2026-05-23 16:01:46.017][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-05-23 16:01:46.018][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-05-23 16:01:46.019][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-05-23 16:01:46.020][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-05-23 16:01:46.021][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-05-23 16:01:46.022][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-05-23 16:01:46.023][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2026-05-23 16:01:46.024][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-05-23 16:01:46.025][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-05-23 16:01:46.026][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2026-05-23 16:01:46.027][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-05-23 16:01:46.028][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-05-23 16:01:46.029][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-05-23 16:01:46.030][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-05-23 16:01:46.030][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-05-23 16:01:46.030][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-05-23 16:01:46.030][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2026-05-23 16:01:46.030][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2026-05-23 16:01:46.031][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-05-23 16:01:46.032][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-05-23 16:01:46.033][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-05-23 16:01:46.034][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-05-23 16:01:46.035][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-05-23 16:01:46.035][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-05-23 16:01:46.036][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-05-23 16:01:46.037][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-05-23 16:01:46.038][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-05-23 16:01:46.039][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-05-23 16:01:46.040][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-05-23 16:01:46.041][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-05-23 16:01:46.042][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2026-05-23 16:01:46.044][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-05-23 16:01:46.045][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2026-05-23 16:01:46.046][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-05-23 16:01:46.047][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-05-23 16:01:46.048][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-05-23 16:01:46.049][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-05-23 16:01:46.050][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-05-23 16:01:46.051][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-05-23 16:01:46.052][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2026-05-23 16:01:46.053][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-05-23 16:01:46.054][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-05-23 16:01:46.055][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2026-05-23 16:01:46.056][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-05-23 16:01:46.057][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-05-23 16:01:46.058][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-05-23 16:01:46.059][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-05-23 16:01:46.059][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-05-23 16:01:46.059][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-05-23 16:01:46.059][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2026-05-23 16:01:46.059][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2026-05-23 16:01:46.060][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-05-23 16:01:46.061][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-05-23 16:01:46.062][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-05-23 16:01:46.063][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-05-23 16:01:46.064][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-05-23 16:01:46.064][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-05-23 16:01:46.065][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-05-23 16:01:46.066][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-05-23 16:01:46.067][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-05-23 16:01:46.068][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-05-23 16:01:46.069][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-05-23 16:01:46.070][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-05-23 16:01:46.071][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2026-05-23 16:01:46.073][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2026-05-23 16:01:46.074][self$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[2026-05-23 16:01:46.075][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-05-23 16:01:46.076][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-05-23 16:01:46.077][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-05-23 16:01:46.078][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-05-23 16:01:46.079][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-05-23 16:01:46.080][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-05-23 16:01:46.081][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2026-05-23 16:01:46.082][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-05-23 16:01:46.083][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2026-05-23 16:01:46.084][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2026-05-23 16:01:46.085][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-05-23 16:01:46.086][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-05-23 16:01:46.087][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-05-23 16:01:46.088][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2026-05-23 16:01:46.089][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-05-23 16:01:46.090][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-05-23 16:01:46.090][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-05-23 16:01:46.091][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-05-23 16:01:46.092][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-05-23 16:01:46.093][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-05-23 16:01:46.094][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-05-23 16:01:46.095][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-05-23 16:01:46.096][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-05-23 16:01:46.097][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-05-23 16:01:46.098][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-05-23 16:01:46.099][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-05-23 16:01:46.100][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2026-05-23 16:01:46.102][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2026-05-23 16:01:46.103][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2026-05-23 16:01:46.104][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-05-23 16:01:46.105][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-05-23 16:01:46.106][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-05-23 16:01:46.107][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-05-23 16:01:46.108][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-05-23 16:01:46.109][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-05-23 16:01:46.110][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2026-05-23 16:01:46.111][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-05-23 16:01:46.112][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2026-05-23 16:01:46.113][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2026-05-23 16:01:46.114][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-05-23 16:01:46.114][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-05-23 16:01:46.115][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-05-23 16:01:46.116][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2026-05-23 16:01:46.117][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-05-23 16:01:46.118][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-05-23 16:01:46.119][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-05-23 16:01:46.120][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-05-23 16:01:46.121][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-05-23 16:01:46.122][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-05-23 16:01:46.123][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-05-23 16:01:46.124][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-05-23 16:01:46.125][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-05-23 16:01:46.126][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-05-23 16:01:46.127][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-05-23 16:01:46.128][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-05-23 16:01:46.132][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-05-23 16:01:46.132][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:46.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:46.134][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:46.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:46.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:46.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:46.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:46.143][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:46.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:46.145][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:46.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:46.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:46.148][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:46.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:46.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:46.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:46.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:46.152][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:46.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:46.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:46.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:46.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:46.157][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:46.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:46.158][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:46.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:46.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:46.161][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:46.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:46.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:46.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:46.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:46.165][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:46.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:46.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:46.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:46.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:46.170][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:46.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:46.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:46.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:46.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:46.174][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:46.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:46.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:46.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:46.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:46.179][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:46.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:46.181][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:46.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:46.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:46.183][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:46.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:46.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:46.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:46.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:46.188][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:46.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:46.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:46.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:46.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:46.198][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:46.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:46.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:46.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:46.202][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:46.204][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:46.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:46.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:46.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:46.208][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:46.209][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:46.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:46.211][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:46.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:46.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:46.214][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:46.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:46.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:46.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:46.218][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:46.219][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2026-05-23 16:01:46.224][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2026-05-23 16:01:46.226][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2026-05-23 16:01:46.227][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2026-05-23 16:01:46.229][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2026-05-23 16:01:46.230][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2026-05-23 16:01:46.232][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2026-05-23 16:01:46.233][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2026-05-23 16:01:46.235][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2026-05-23 16:01:46.236][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2026-05-23 16:01:46.238][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2026-05-23 16:01:46.239][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2026-05-23 16:01:46.241][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2026-05-23 16:01:46.242][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2026-05-23 16:01:46.244][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2026-05-23 16:01:46.245][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2026-05-23 16:01:46.247][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2026-05-23 16:01:46.248][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2026-05-23 16:01:46.250][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2026-05-23 16:01:46.251][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2026-05-23 16:01:46.253][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2026-05-23 16:01:46.254][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2026-05-23 16:01:46.256][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2026-05-23 16:01:46.257][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2026-05-23 16:01:46.259][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2026-05-23 16:01:46.260][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2026-05-23 16:01:46.262][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2026-05-23 16:01:46.263][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2026-05-23 16:01:46.265][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2026-05-23 16:01:46.266][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2026-05-23 16:01:46.268][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2026-05-23 16:01:46.269][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2026-05-23 16:01:46.271][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2026-05-23 16:01:46.272][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2026-05-23 16:01:46.274][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2026-05-23 16:01:46.275][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2026-05-23 16:01:46.277][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2026-05-23 16:01:46.278][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2026-05-23 16:01:46.280][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2026-05-23 16:01:46.281][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2026-05-23 16:01:46.283][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2026-05-23 16:01:46.284][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2026-05-23 16:01:46.286][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2026-05-23 16:01:46.287][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2026-05-23 16:01:46.289][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2026-05-23 16:01:46.290][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2026-05-23 16:01:46.291][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2026-05-23 16:01:46.293][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2026-05-23 16:01:46.294][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2026-05-23 16:01:46.296][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2026-05-23 16:01:46.297][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2026-05-23 16:01:46.299][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2026-05-23 16:01:46.300][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2026-05-23 16:01:46.302][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2026-05-23 16:01:46.303][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2026-05-23 16:01:46.305][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2026-05-23 16:01:46.306][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2026-05-23 16:01:46.308][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2026-05-23 16:01:46.309][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2026-05-23 16:01:46.311][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2026-05-23 16:01:46.312][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2026-05-23 16:01:46.314][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2026-05-23 16:01:46.315][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2026-05-23 16:01:46.317][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2026-05-23 16:01:46.318][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2026-05-23 16:01:46.320][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2026-05-23 16:01:46.321][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2026-05-23 16:01:46.323][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2026-05-23 16:01:46.324][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2026-05-23 16:01:46.326][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2026-05-23 16:01:46.327][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2026-05-23 16:01:46.329][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2026-05-23 16:01:46.330][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2026-05-23 16:01:46.332][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2026-05-23 16:01:46.333][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2026-05-23 16:01:46.335][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2026-05-23 16:01:46.336][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2026-05-23 16:01:46.338][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2026-05-23 16:01:46.339][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2026-05-23 16:01:46.341][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2026-05-23 16:01:46.354][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2026-05-23 16:01:46.356][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2026-05-23 16:01:46.357][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2026-05-23 16:01:46.364][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2026-05-23 16:01:46.366][initialize] This is biodb version 1.20.0.
biodb.DEBUG[2026-05-23 16:01:46.369][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-05-23 16:01:46.370][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:46.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:46.372][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:46.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:46.378][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:46.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-23 16:01:46.380][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-23 16:01:46.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:46.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:46.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:46.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:46.385][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:46.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-23 16:01:46.387][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-23 16:01:46.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:46.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:46.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:46.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:46.391][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:46.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-23 16:01:46.393][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-23 16:01:46.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:46.395][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:46.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:46.397][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[2026-05-23 16:01:46.398][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:46.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-23 16:01:46.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-23 16:01:46.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:46.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:46.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:46.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:46.405][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:46.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-23 16:01:46.407][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-23 16:01:46.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:46.408][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:46.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:46.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:46.411][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:46.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-23 16:01:46.413][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-23 16:01:46.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:46.415][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:46.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:46.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:46.417][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:46.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-23 16:01:46.419][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-23 16:01:46.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:46.421][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:46.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:46.423][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:46.423][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:46.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-23 16:01:46.425][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-23 16:01:46.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:46.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:46.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:46.429][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[2026-05-23 16:01:46.430][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:46.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-23 16:01:46.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-23 16:01:46.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:46.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:46.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:46.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:46.436][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:46.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-23 16:01:46.438][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-23 16:01:46.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:46.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:46.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:46.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:46.442][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:46.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-23 16:01:46.444][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-23 16:01:46.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:46.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:46.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:46.447][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[2026-05-23 16:01:46.448][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:46.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-23 16:01:46.450][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-23 16:01:46.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:46.452][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:46.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:46.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:46.454][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:46.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-23 16:01:46.456][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-23 16:01:46.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:46.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:46.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:46.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:46.461][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:46.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-23 16:01:46.462][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-23 16:01:46.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:46.464][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:46.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:46.466][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:46.467][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:46.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-23 16:01:46.469][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-23 16:01:46.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:46.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:46.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:46.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:46.473][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-23 16:01:46.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-23 16:01:46.475][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-23 16:01:46.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:46.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:46.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:46.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-23 16:01:46.480][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/definitions.yml".
biodb.DEBUG[2026-05-23 16:01:46.489][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2026-05-23 16:01:46.491][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-05-23 16:01:46.492][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2026-05-23 16:01:46.493][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-05-23 16:01:46.494][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-05-23 16:01:46.495][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-05-23 16:01:46.496][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-05-23 16:01:46.497][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2026-05-23 16:01:46.498][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2026-05-23 16:01:46.499][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2026-05-23 16:01:46.500][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-05-23 16:01:46.501][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-05-23 16:01:46.502][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2026-05-23 16:01:46.503][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-05-23 16:01:46.504][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2026-05-23 16:01:46.504][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2026-05-23 16:01:46.504][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2026-05-23 16:01:46.504][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2026-05-23 16:01:46.504][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2026-05-23 16:01:46.504][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2026-05-23 16:01:46.504][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2026-05-23 16:01:46.504][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2026-05-23 16:01:46.504][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2026-05-23 16:01:46.504][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2026-05-23 16:01:46.504][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2026-05-23 16:01:46.505][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2026-05-23 16:01:46.506][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-05-23 16:01:46.506][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-05-23 16:01:46.506][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-05-23 16:01:46.507][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2026-05-23 16:01:46.508][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-05-23 16:01:46.509][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-05-23 16:01:46.510][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-05-23 16:01:46.511][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-05-23 16:01:46.512][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-05-23 16:01:46.513][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-05-23 16:01:46.514][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2026-05-23 16:01:46.514][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2026-05-23 16:01:46.515][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-05-23 16:01:46.516][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-05-23 16:01:46.517][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2026-05-23 16:01:46.518][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2026-05-23 16:01:46.518][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2026-05-23 16:01:46.524][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2026-05-23 16:01:46.525][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2026-05-23 16:01:46.527][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2026-05-23 16:01:46.528][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2026-05-23 16:01:46.530][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2026-05-23 16:01:46.531][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2026-05-23 16:01:46.557][super$initialize] Initialize connector chebi.
biodb.DEBUG[2026-05-23 16:01:46.571][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2026-05-23 16:01:46.580][biodb::testThat]
biodb.INFO [2026-05-23 16:01:46.581][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2026-05-23 16:01:46.582][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-23 16:01:46.583][biodb::testThat]
biodb.TRACE[2026-05-23 16:01:46.586][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2026-05-23 16:01:46.588][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-05-23 16:01:46.591][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-05-23 16:01:46.599][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-05-23 16:01:46.600][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-23 16:01:46.601][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-23 16:01:46.613][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:46.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:46.615][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:46.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-05-23 16:01:46.625][ef$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:46.626][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:46.627][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.628][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:46.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:46.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.645][ef$get] Asked field names are: charge.
biodb.TRACE[2026-05-23 16:01:46.646][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-23 16:01:46.647][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.648][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.673][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-23 16:01:46.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-23 16:01:46.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.677][ef$get] Asked field names are: formula.
biodb.TRACE[2026-05-23 16:01:46.678][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-23 16:01:46.679][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.680][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.681][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-23 16:01:46.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-23 16:01:46.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.686][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-05-23 16:01:46.687][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-23 16:01:46.688][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.689][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.690][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-23 16:01:46.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-23 16:01:46.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.694][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-23 16:01:46.695][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-23 16:01:46.696][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.697][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.698][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-23 16:01:46.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-23 16:01:46.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.702][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:46.703][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:46.704][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.705][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.706][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:46.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:46.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.710][ef$get] Asked field names are: mass.
biodb.TRACE[2026-05-23 16:01:46.711][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:46.712][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.713][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.714][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-05-23 16:01:46.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:46.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.719][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:46.720][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:46.721][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.722][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.723][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:46.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:46.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.727][ef$get] Asked field names are: name.
biodb.TRACE[2026-05-23 16:01:46.728][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-05-23 16:01:46.729][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.730][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.731][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-23 16:01:46.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-23 16:01:46.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.744][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-05-23 16:01:46.745][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-23 16:01:46.746][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.747][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.748][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-05-23 16:01:46.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-23 16:01:46.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.752][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-05-23 16:01:46.753][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-23 16:01:46.754][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.755][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.756][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-23 16:01:46.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-23 16:01:46.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.760][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:01:46.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:01:46.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:01:46.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:01:46.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.768][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:46.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:46.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.772][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:01:46.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:01:46.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.776][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:46.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:46.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.780][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:46.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:46.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.784][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:46.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:46.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.818][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:46.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:46.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.822][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:46.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:46.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.826][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:46.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:46.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-05-23 16:01:46.830][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2026-05-23 16:01:46.833][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-23 16:01:46.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-23 16:01:46.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.837][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-23 16:01:46.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-23 16:01:46.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.862][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-23 16:01:46.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-23 16:01:46.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.866][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-23 16:01:46.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-23 16:01:46.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.870][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:46.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:46.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.913][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:46.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:46.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.917][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-05-23 16:01:46.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-05-23 16:01:46.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.921][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-05-23 16:01:46.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-05-23 16:01:46.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.925][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-05-23 16:01:46.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-05-23 16:01:46.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.929][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-05-23 16:01:46.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-05-23 16:01:46.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:46.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:46.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.950][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:01:46.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:01:46.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.957][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:46.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:46.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.961][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:46.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:46.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.965][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:46.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:46.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.971][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:46.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:46.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.975][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:46.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:46.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.979][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:46.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:46.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.983][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:01:46.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:01:46.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.987][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:01:46.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:01:46.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:46.991][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:01:46.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:01:46.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:46.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:47.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:47.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:47.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:47.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.008][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:47.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:47.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.013][ef$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:47.014][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:47.014][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.015][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:47.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:47.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.027][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:01:47.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:01:47.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.031][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:01:47.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:01:47.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.035][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:01:47.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:01:47.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.039][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:01:47.040][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:01:47.041][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.042][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.043][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:01:47.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:01:47.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.054][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-23 16:01:47.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-23 16:01:47.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.062][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-23 16:01:47.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-23 16:01:47.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.066][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-23 16:01:47.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-23 16:01:47.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.070][ef$get] Asked field names are: name.
biodb.TRACE[2026-05-23 16:01:47.071][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-05-23 16:01:47.072][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.073][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.074][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-23 16:01:47.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-23 16:01:47.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.085][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-23 16:01:47.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-23 16:01:47.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.089][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-23 16:01:47.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-23 16:01:47.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.093][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-23 16:01:47.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-23 16:01:47.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.097][ef$get] Asked field names are: formula.
biodb.TRACE[2026-05-23 16:01:47.098][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-23 16:01:47.099][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.100][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.101][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-23 16:01:47.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-23 16:01:47.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.111][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:47.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:47.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.115][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:47.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:47.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.119][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:47.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:47.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.123][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:47.124][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:47.125][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.126][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.127][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:47.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:47.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.138][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:47.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:47.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.142][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:47.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:47.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.146][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:47.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:47.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.150][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:47.151][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:47.152][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.153][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.154][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:47.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:47.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.165][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-23 16:01:47.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-23 16:01:47.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.169][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-23 16:01:47.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-23 16:01:47.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.173][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-23 16:01:47.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-23 16:01:47.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.177][ef$get] Asked field names are: charge.
biodb.TRACE[2026-05-23 16:01:47.178][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-23 16:01:47.179][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.180][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.181][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-23 16:01:47.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-23 16:01:47.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.191][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-23 16:01:47.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-23 16:01:47.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.195][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-23 16:01:47.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-23 16:01:47.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.199][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-23 16:01:47.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-23 16:01:47.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.203][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-23 16:01:47.204][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-23 16:01:47.205][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.210][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.211][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-23 16:01:47.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-23 16:01:47.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.222][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:47.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:47.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.226][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:47.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:47.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.230][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:47.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:47.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.234][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:47.235][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:47.236][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.237][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.238][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:47.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:47.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.249][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-23 16:01:47.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-23 16:01:47.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.253][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-23 16:01:47.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-23 16:01:47.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.257][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-23 16:01:47.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-23 16:01:47.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.261][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-05-23 16:01:47.262][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-23 16:01:47.263][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.264][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.265][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-23 16:01:47.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-23 16:01:47.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.275][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-23 16:01:47.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-23 16:01:47.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.279][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-23 16:01:47.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-23 16:01:47.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.283][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-23 16:01:47.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-23 16:01:47.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.287][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-23 16:01:47.288][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-23 16:01:47.289][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.290][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.291][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-23 16:01:47.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-23 16:01:47.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.302][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-23 16:01:47.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-23 16:01:47.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.306][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-23 16:01:47.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-23 16:01:47.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.310][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-23 16:01:47.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-23 16:01:47.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.314][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-05-23 16:01:47.315][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-23 16:01:47.316][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.317][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.318][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-23 16:01:47.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-23 16:01:47.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.329][ef$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:47.330][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:47.331][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.332][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.336][ef$get] Asked field names are: charge.
biodb.TRACE[2026-05-23 16:01:47.337][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-23 16:01:47.338][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.339][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.343][ef$get] Asked field names are: formula.
biodb.TRACE[2026-05-23 16:01:47.344][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-23 16:01:47.345][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.346][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.350][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-05-23 16:01:47.351][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-23 16:01:47.352][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.353][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.361][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-23 16:01:47.362][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-23 16:01:47.363][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.363][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.367][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:47.368][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:47.369][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.370][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.374][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:47.375][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:47.376][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.377][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.381][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:47.382][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:47.383][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.384][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.388][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-23 16:01:47.389][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-23 16:01:47.390][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.391][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.395][ef$get] Asked field names are: name.
biodb.TRACE[2026-05-23 16:01:47.396][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-05-23 16:01:47.397][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.398][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.401][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-05-23 16:01:47.403][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-23 16:01:47.403][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.404][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.420][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-2528-content.xml".
biodb.DEBUG[2026-05-23 16:01:47.453][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-05-23 16:01:47.454][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-05-23 16:01:47.456][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-05-23 16:01:47.456][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-23 16:01:47.457][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-23 16:01:47.461][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:47.462][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:47.463][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:47.464][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-05-23 16:01:47.466][ef$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:47.467][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:47.468][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.469][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:47.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:47.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.494][ef$get] Asked field names are: charge.
biodb.TRACE[2026-05-23 16:01:47.495][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-23 16:01:47.496][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.496][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.498][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-23 16:01:47.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-23 16:01:47.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.502][ef$get] Asked field names are: formula.
biodb.TRACE[2026-05-23 16:01:47.503][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-23 16:01:47.504][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.505][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.506][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-23 16:01:47.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-23 16:01:47.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.510][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-05-23 16:01:47.511][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-23 16:01:47.512][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.513][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.514][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-23 16:01:47.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-23 16:01:47.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.518][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-23 16:01:47.519][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-23 16:01:47.520][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.521][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.522][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-23 16:01:47.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-23 16:01:47.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.526][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:47.528][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:47.528][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.529][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.531][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:47.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:47.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.535][ef$get] Asked field names are: mass.
biodb.TRACE[2026-05-23 16:01:47.536][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:47.537][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.538][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.539][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-05-23 16:01:47.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:47.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.543][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:47.544][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:47.545][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.546][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.547][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:47.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:47.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.551][ef$get] Asked field names are: name.
biodb.TRACE[2026-05-23 16:01:47.552][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-05-23 16:01:47.553][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.554][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.555][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-23 16:01:47.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-23 16:01:47.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.559][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-05-23 16:01:47.560][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-23 16:01:47.561][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.562][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.563][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-05-23 16:01:47.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-23 16:01:47.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.567][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-05-23 16:01:47.568][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-23 16:01:47.569][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.570][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.571][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-23 16:01:47.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-23 16:01:47.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.575][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:01:47.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:01:47.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.579][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:01:47.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:01:47.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:47.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:47.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.587][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:01:47.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:01:47.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:47.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:47.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.595][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:47.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:47.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.599][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:47.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:47.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:47.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:47.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:47.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:47.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.611][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:47.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:47.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-05-23 16:01:47.615][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 2528.
biodb.TRACE[2026-05-23 16:01:47.638][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-23 16:01:47.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-23 16:01:47.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.642][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-23 16:01:47.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-23 16:01:47.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.646][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-23 16:01:47.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-23 16:01:47.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.650][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-23 16:01:47.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-23 16:01:47.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.654][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:47.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:47.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.658][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:47.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:47.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.662][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-05-23 16:01:47.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-05-23 16:01:47.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.666][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-05-23 16:01:47.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-05-23 16:01:47.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.670][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-05-23 16:01:47.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-05-23 16:01:47.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.673][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-05-23 16:01:47.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-05-23 16:01:47.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.678][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:47.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:47.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.686][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:01:47.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:01:47.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:47.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:47.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.697][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:47.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:47.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:47.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:47.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.707][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:47.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:47.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:47.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:47.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:47.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:47.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.719][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:01:47.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:01:47.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.723][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:01:47.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:01:47.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.727][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:01:47.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:01:47.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:47.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:47.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.749][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:47.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:47.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.753][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:47.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:47.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.757][ef$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:47.758][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:47.759][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.760][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:47.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:47.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.773][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:01:47.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:01:47.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.777][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:01:47.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:01:47.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.784][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:01:47.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:01:47.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.788][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:01:47.789][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:01:47.790][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.791][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.792][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:01:47.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:01:47.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.803][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-23 16:01:47.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-23 16:01:47.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.807][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-23 16:01:47.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-23 16:01:47.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.811][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-23 16:01:47.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-23 16:01:47.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.815][ef$get] Asked field names are: name.
biodb.TRACE[2026-05-23 16:01:47.816][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-05-23 16:01:47.817][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.818][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.819][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-23 16:01:47.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-23 16:01:47.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.829][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-23 16:01:47.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-23 16:01:47.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.833][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-23 16:01:47.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-23 16:01:47.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.837][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-23 16:01:47.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-23 16:01:47.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.841][ef$get] Asked field names are: formula.
biodb.TRACE[2026-05-23 16:01:47.842][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-23 16:01:47.843][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.844][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.845][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-23 16:01:47.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-23 16:01:47.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.856][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-05-23 16:01:47.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:47.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.860][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:47.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:47.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.864][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:47.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:47.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.868][ef$get] Asked field names are: mass.
biodb.TRACE[2026-05-23 16:01:47.869][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:47.870][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.870][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.871][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-05-23 16:01:47.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:47.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.882][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:47.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:47.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.886][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:47.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:47.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.890][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:47.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:47.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.894][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:47.895][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:47.896][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.897][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.898][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:47.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:47.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.908][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:47.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:47.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.912][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:47.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:47.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.916][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:47.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:47.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.920][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:47.921][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:47.922][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.923][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.924][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:47.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:47.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.939][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-23 16:01:47.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-23 16:01:47.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.943][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-23 16:01:47.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-23 16:01:47.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.946][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-23 16:01:47.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-23 16:01:47.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.950][ef$get] Asked field names are: charge.
biodb.TRACE[2026-05-23 16:01:47.951][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-23 16:01:47.952][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.953][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.954][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-23 16:01:47.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-23 16:01:47.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.965][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-23 16:01:47.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-23 16:01:47.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.969][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-23 16:01:47.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-23 16:01:47.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.973][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-23 16:01:47.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-23 16:01:47.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.977][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-23 16:01:47.978][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-23 16:01:47.979][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.980][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.981][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-23 16:01:47.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-23 16:01:47.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.992][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:47.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:47.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.995][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:47.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:47.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:47.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:47.999][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:48.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:48.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.003][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:48.004][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:48.005][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.006][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.007][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:48.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:48.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.018][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-23 16:01:48.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-23 16:01:48.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.022][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-23 16:01:48.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-23 16:01:48.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.026][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-23 16:01:48.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-23 16:01:48.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.030][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-05-23 16:01:48.031][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-23 16:01:48.032][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.033][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.034][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-23 16:01:48.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-23 16:01:48.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.044][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-23 16:01:48.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-23 16:01:48.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.048][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-23 16:01:48.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-23 16:01:48.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.052][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-23 16:01:48.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-23 16:01:48.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.056][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-23 16:01:48.057][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-23 16:01:48.058][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.059][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.060][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-23 16:01:48.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-23 16:01:48.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.074][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-23 16:01:48.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-23 16:01:48.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.078][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-23 16:01:48.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-23 16:01:48.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.082][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-23 16:01:48.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-23 16:01:48.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.086][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-05-23 16:01:48.087][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-23 16:01:48.088][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.089][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.090][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-23 16:01:48.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-23 16:01:48.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.101][ef$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:48.102][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:48.103][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.104][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.108][ef$get] Asked field names are: charge.
biodb.TRACE[2026-05-23 16:01:48.109][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-23 16:01:48.110][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.111][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.115][ef$get] Asked field names are: formula.
biodb.TRACE[2026-05-23 16:01:48.116][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-23 16:01:48.117][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.118][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.122][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-05-23 16:01:48.123][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-23 16:01:48.124][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.125][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.128][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-23 16:01:48.129][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-23 16:01:48.130][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.131][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.135][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:48.136][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:48.137][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.138][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.142][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:48.143][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:48.144][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.145][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.149][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:48.150][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:48.151][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.152][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.156][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-23 16:01:48.157][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-23 16:01:48.158][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.159][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.162][ef$get] Asked field names are: name.
biodb.TRACE[2026-05-23 16:01:48.163][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-05-23 16:01:48.164][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.165][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.169][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-05-23 16:01:48.170][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-23 16:01:48.171][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.172][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.176][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-7799-content.xml".
biodb.DEBUG[2026-05-23 16:01:48.178][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-05-23 16:01:48.179][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-05-23 16:01:48.180][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-05-23 16:01:48.181][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-23 16:01:48.182][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-23 16:01:48.186][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:48.187][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:48.188][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:48.188][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-05-23 16:01:48.191][ef$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:48.192][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:48.193][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.193][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.195][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:48.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:48.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.199][ef$get] Asked field names are: charge.
biodb.TRACE[2026-05-23 16:01:48.200][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-23 16:01:48.201][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.202][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.203][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-23 16:01:48.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-23 16:01:48.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.207][ef$get] Asked field names are: formula.
biodb.TRACE[2026-05-23 16:01:48.208][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-23 16:01:48.209][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.210][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.211][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-23 16:01:48.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-23 16:01:48.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.215][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-05-23 16:01:48.216][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-23 16:01:48.221][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.222][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.223][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-23 16:01:48.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-23 16:01:48.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.227][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-23 16:01:48.228][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-23 16:01:48.229][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.230][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.231][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-23 16:01:48.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-23 16:01:48.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.235][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:48.236][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:48.237][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.238][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.239][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:48.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:48.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.243][ef$get] Asked field names are: mass.
biodb.TRACE[2026-05-23 16:01:48.244][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:48.245][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.246][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.247][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-05-23 16:01:48.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:48.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.251][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:48.252][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:48.253][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.254][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.255][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:48.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:48.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.259][ef$get] Asked field names are: name.
biodb.TRACE[2026-05-23 16:01:48.260][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-05-23 16:01:48.261][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.262][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.263][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-23 16:01:48.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-23 16:01:48.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.267][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-05-23 16:01:48.268][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-23 16:01:48.269][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.270][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.271][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-05-23 16:01:48.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-23 16:01:48.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.275][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-05-23 16:01:48.276][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-23 16:01:48.277][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.278][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.279][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-23 16:01:48.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-23 16:01:48.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.283][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:01:48.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:01:48.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.287][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:01:48.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:01:48.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.291][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:48.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:48.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.295][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:01:48.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:01:48.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:48.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:48.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:48.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:48.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.307][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:48.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:48.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:48.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:48.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.315][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:48.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:48.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:48.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:48.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-05-23 16:01:48.323][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 7799.
biodb.TRACE[2026-05-23 16:01:48.325][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-23 16:01:48.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-23 16:01:48.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.328][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-23 16:01:48.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-23 16:01:48.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.332][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-23 16:01:48.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-23 16:01:48.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.336][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-23 16:01:48.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-23 16:01:48.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.340][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:48.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:48.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.344][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:48.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:48.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.348][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-05-23 16:01:48.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-05-23 16:01:48.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.352][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-05-23 16:01:48.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-05-23 16:01:48.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.356][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-05-23 16:01:48.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-05-23 16:01:48.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.360][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-05-23 16:01:48.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-05-23 16:01:48.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.365][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:48.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:48.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.376][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:01:48.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:01:48.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.383][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:48.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:48.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.387][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:48.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:48.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:48.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:48.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.396][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:48.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:48.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:48.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:48.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:48.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:48.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.408][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:01:48.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:01:48.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.412][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:01:48.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:01:48.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.416][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:01:48.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:01:48.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.425][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:48.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:48.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:48.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:48.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:48.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:48.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.436][ef$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:48.438][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:48.438][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.439][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.440][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:48.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:48.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.451][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-23 16:01:48.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-23 16:01:48.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.455][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-23 16:01:48.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-23 16:01:48.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.459][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-23 16:01:48.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-23 16:01:48.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.463][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-05-23 16:01:48.464][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-23 16:01:48.465][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.466][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.467][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-23 16:01:48.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-23 16:01:48.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.478][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-23 16:01:48.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-23 16:01:48.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.482][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-23 16:01:48.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-23 16:01:48.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.486][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-23 16:01:48.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-23 16:01:48.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.490][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-05-23 16:01:48.491][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-23 16:01:48.492][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.492][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.493][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-23 16:01:48.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-23 16:01:48.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.504][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-23 16:01:48.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-23 16:01:48.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.508][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-23 16:01:48.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-23 16:01:48.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.512][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-23 16:01:48.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-23 16:01:48.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.520][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-23 16:01:48.521][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-23 16:01:48.522][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.523][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.524][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-23 16:01:48.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-23 16:01:48.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.535][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:48.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:48.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.539][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:48.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:48.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.543][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:48.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:48.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.547][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:48.548][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:48.549][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.550][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.551][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:48.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:48.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.562][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:48.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:48.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.566][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:48.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:48.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.570][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:48.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:48.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.574][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:48.575][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:48.576][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.577][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.578][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:48.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:48.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.588][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:48.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:48.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.592][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:48.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:48.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.596][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:48.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:48.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.600][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:48.601][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:48.602][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.603][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.604][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:48.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:48.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.615][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-23 16:01:48.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-23 16:01:48.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.619][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-23 16:01:48.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-23 16:01:48.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.623][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-23 16:01:48.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-23 16:01:48.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.627][ef$get] Asked field names are: charge.
biodb.TRACE[2026-05-23 16:01:48.628][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-23 16:01:48.629][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.630][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.631][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-23 16:01:48.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-23 16:01:48.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.642][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-23 16:01:48.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-23 16:01:48.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.646][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-23 16:01:48.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-23 16:01:48.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.650][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-23 16:01:48.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-23 16:01:48.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.654][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-23 16:01:48.655][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-23 16:01:48.656][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.657][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.657][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-23 16:01:48.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-23 16:01:48.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.672][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-23 16:01:48.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-23 16:01:48.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.676][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-23 16:01:48.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-23 16:01:48.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.680][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-23 16:01:48.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-23 16:01:48.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.684][ef$get] Asked field names are: name.
biodb.TRACE[2026-05-23 16:01:48.685][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-05-23 16:01:48.686][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.687][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.688][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-23 16:01:48.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-23 16:01:48.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.699][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-23 16:01:48.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-23 16:01:48.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.703][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-23 16:01:48.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-23 16:01:48.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.707][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-23 16:01:48.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-23 16:01:48.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.711][ef$get] Asked field names are: formula.
biodb.TRACE[2026-05-23 16:01:48.712][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-23 16:01:48.713][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.713][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.714][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-23 16:01:48.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-23 16:01:48.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.725][ef$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:01:48.727][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:01:48.727][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.728][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.732][ef$get] Asked field names are: charge.
biodb.TRACE[2026-05-23 16:01:48.733][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-23 16:01:48.734][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.735][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.739][ef$get] Asked field names are: formula.
biodb.TRACE[2026-05-23 16:01:48.740][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-23 16:01:48.741][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.742][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.746][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-05-23 16:01:48.747][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-23 16:01:48.748][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.749][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.753][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-23 16:01:48.754][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-23 16:01:48.755][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.756][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.760][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:48.761][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-23 16:01:48.762][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.763][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.766][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:48.767][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-23 16:01:48.768][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.769][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.773][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:48.774][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:01:48.775][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.776][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.780][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-23 16:01:48.781][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-23 16:01:48.782][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.783][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.787][ef$get] Asked field names are: name.
biodb.TRACE[2026-05-23 16:01:48.788][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-05-23 16:01:48.789][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.790][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:01:48.794][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-05-23 16:01:48.795][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-23 16:01:48.796][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:01:48.797][ef$get] fields variable is a list.
biodb.INFO [2026-05-23 16:01:48.803][biodb::testThat]
biodb.INFO [2026-05-23 16:01:48.804][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2026-05-23 16:01:48.805][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-23 16:01:48.806][biodb::testThat]
biodb.DEBUG[2026-05-23 16:01:48.812][private$loadEntries] Creating entries from ids [3]: "15440, 2528, 7799".
biodb.DEBUG[2026-05-23 16:01:48.817][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2026-05-23 16:01:48.820][cch$loadContents] Load 3 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2026-05-23 16:01:48.821][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2026-05-23 16:01:48.822][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2026-05-23 16:01:48.823][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2026-05-23 16:01:48.824][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2026-05-23 16:01:48.830][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-05-23 16:01:48.831][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-23 16:01:48.832][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-23 16:01:48.836][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:48.837][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:48.838][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:48.839][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2026-05-23 16:01:48.841][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
fscache.INFO [2026-05-23 16:01:48.860][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2026-05-23 16:01:48.861][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-23 16:01:48.862][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-23 16:01:48.863][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-05-23 16:01:49.677][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-05-23 16:01:49.679][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-23 16:01:49.680][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-23 16:01:49.682][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-05-23 16:01:50.260][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-05-23 16:01:50.262][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-23 16:01:50.265][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-23 16:01:50.268][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-05-23 16:01:50.599][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-05-23 16:01:50.601][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-23 16:01:50.603][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-23 16:01:50.606][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-05-23 16:01:51.052][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-05-23 16:01:51.055][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-23 16:01:51.057][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-23 16:01:51.060][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-05-23 16:01:51.391][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-05-23 16:01:51.393][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-23 16:01:51.396][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-23 16:01:51.398][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-05-23 16:01:51.846][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-05-23 16:01:51.848][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-23 16:01:51.851][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-23 16:01:51.854][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-05-23 16:01:52.183][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-05-23 16:01:52.185][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-23 16:01:52.188][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-23 16:01:52.190][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-05-23 16:01:52.637][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-05-23 16:01:52.640][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-23 16:01:52.642][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-23 16:01:52.645][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-05-23 16:01:53.218][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-05-23 16:01:53.220][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-23 16:01:53.223][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-23 16:01:53.225][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-05-23 16:01:53.672][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-05-23 16:01:53.675][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-23 16:01:53.677][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-23 16:01:53.680][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-05-23 16:01:54.021][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-05-23 16:01:54.023][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-23 16:01:54.024][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-23 16:01:54.026][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-05-23 16:01:54.560][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-05-23 16:01:54.562][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-23 16:01:54.563][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-23 16:01:54.565][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-05-23 16:01:54.892][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-05-23 16:01:54.893][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-23 16:01:54.894][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-23 16:01:54.896][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-05-23 16:01:55.429][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-05-23 16:01:55.430][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-23 16:01:55.431][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-23 16:01:55.432][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-05-23 16:01:55.998][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-05-23 16:01:55.999][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-23 16:01:56.001][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-23 16:01:56.002][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-05-23 16:01:56.535][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-05-23 16:01:56.537][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-23 16:01:56.538][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-23 16:01:56.539][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-05-23 16:01:56.866][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-05-23 16:01:56.867][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-23 16:01:56.868][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-23 16:01:56.870][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-05-23 16:01:57.403][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-05-23 16:01:57.404][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-23 16:01:57.405][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-23 16:01:57.407][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-05-23 16:01:57.733][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-05-23 16:01:57.734][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-23 16:01:57.735][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-23 16:01:57.736][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-05-23 16:01:58.272][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
biodb.DEBUG[2026-05-23 16:01:58.277][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-05-23 16:01:58.280][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-23 16:01:58.282][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-23 16:01:58.346][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:01:58.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:01:58.349][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:01:58.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2026-05-23 16:01:58.370][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
fscache.INFO [2026-05-23 16:01:58.402][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2026-05-23 16:01:58.418][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-23 16:01:58.420][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-23 16:01:58.421][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-05-23 16:01:58.750][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-05-23 16:01:58.752][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-23 16:01:58.754][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-23 16:01:58.756][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-05-23 16:01:59.291][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-05-23 16:01:59.292][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-23 16:01:59.293][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-23 16:01:59.294][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-05-23 16:01:59.621][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-05-23 16:01:59.622][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-23 16:01:59.624][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-23 16:01:59.625][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-05-23 16:02:00.157][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-05-23 16:02:00.158][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-23 16:02:00.159][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-23 16:02:00.160][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-05-23 16:02:00.487][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-05-23 16:02:00.488][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-23 16:02:00.489][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-23 16:02:00.490][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-05-23 16:02:01.022][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-05-23 16:02:01.024][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-23 16:02:01.025][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-23 16:02:01.026][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-05-23 16:02:01.353][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-05-23 16:02:01.355][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-23 16:02:01.356][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-23 16:02:01.357][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-05-23 16:02:01.890][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-05-23 16:02:01.891][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-23 16:02:01.892][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-23 16:02:01.894][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-05-23 16:02:02.228][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-05-23 16:02:02.230][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-23 16:02:02.233][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-23 16:02:02.236][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-05-23 16:02:02.689][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-05-23 16:02:02.692][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-23 16:02:02.694][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-23 16:02:02.697][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-05-23 16:02:03.030][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-05-23 16:02:03.031][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-23 16:02:03.032][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-23 16:02:03.034][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-05-23 16:02:03.565][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-05-23 16:02:03.567][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-23 16:02:03.568][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-23 16:02:03.569][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-05-23 16:02:03.900][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-05-23 16:02:03.914][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-23 16:02:03.915][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-23 16:02:03.917][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-05-23 16:02:04.571][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-05-23 16:02:04.572][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-23 16:02:04.573][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-23 16:02:04.574][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-05-23 16:02:04.900][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-05-23 16:02:04.902][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-23 16:02:04.903][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-23 16:02:04.904][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-05-23 16:02:05.437][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-05-23 16:02:05.438][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-23 16:02:05.439][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-23 16:02:05.440][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-05-23 16:02:05.772][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-05-23 16:02:05.775][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-23 16:02:05.777][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-23 16:02:05.779][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-05-23 16:02:06.317][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-05-23 16:02:06.320][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-23 16:02:06.322][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-23 16:02:06.325][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-05-23 16:02:06.661][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-05-23 16:02:06.663][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-23 16:02:06.666][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-23 16:02:06.668][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-05-23 16:02:07.117][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
biodb.DEBUG[2026-05-23 16:02:07.119][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-05-23 16:02:07.120][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-23 16:02:07.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-23 16:02:07.127][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:02:07.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:02:07.129][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:02:07.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2026-05-23 16:02:07.132][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
fscache.INFO [2026-05-23 16:02:07.134][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2026-05-23 16:02:07.136][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-23 16:02:07.137][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-23 16:02:07.138][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-05-23 16:02:07.492][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-05-23 16:02:07.493][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-23 16:02:07.494][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-23 16:02:07.495][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-05-23 16:02:08.028][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-05-23 16:02:08.029][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-23 16:02:08.030][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-23 16:02:08.032][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-05-23 16:02:08.358][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-05-23 16:02:08.359][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-23 16:02:08.360][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-23 16:02:08.361][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-05-23 16:02:08.894][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-05-23 16:02:08.895][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-23 16:02:08.897][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-23 16:02:08.898][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-05-23 16:02:09.225][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-05-23 16:02:09.227][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-23 16:02:09.230][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-23 16:02:09.233][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-05-23 16:02:09.684][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-05-23 16:02:09.687][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-23 16:02:09.690][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-23 16:02:09.693][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-05-23 16:02:10.025][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-05-23 16:02:10.028][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-23 16:02:10.031][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-23 16:02:10.034][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-05-23 16:02:10.484][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-05-23 16:02:10.487][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-23 16:02:10.490][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-23 16:02:10.493][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-05-23 16:02:10.826][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-05-23 16:02:10.828][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-23 16:02:10.831][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-23 16:02:10.833][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-05-23 16:02:11.282][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-05-23 16:02:11.285][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-23 16:02:11.287][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-23 16:02:11.291][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-05-23 16:02:11.624][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-05-23 16:02:11.626][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-23 16:02:11.629][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-23 16:02:11.632][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-05-23 16:02:12.198][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-05-23 16:02:12.201][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-23 16:02:12.203][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-23 16:02:12.207][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-05-23 16:02:12.539][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-05-23 16:02:12.541][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-23 16:02:12.544][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-23 16:02:12.546][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-05-23 16:02:12.992][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-05-23 16:02:12.995][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-23 16:02:12.997][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-23 16:02:13.001][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-05-23 16:02:13.380][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-05-23 16:02:13.382][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-23 16:02:13.385][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-23 16:02:13.388][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-05-23 16:02:13.837][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-05-23 16:02:13.840][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-23 16:02:13.842][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-23 16:02:13.846][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-05-23 16:02:14.178][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-05-23 16:02:14.181][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-23 16:02:14.184][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-23 16:02:14.186][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-05-23 16:02:14.634][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-05-23 16:02:14.636][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-23 16:02:14.639][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-23 16:02:14.643][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-05-23 16:02:14.978][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-05-23 16:02:14.980][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-23 16:02:14.983][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-23 16:02:14.986][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-05-23 16:02:15.432][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
fscache.INFO [2026-05-23 16:02:15.437][cch$saveContents] Save 3 contents to /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2026-05-23 16:02:15.439][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2026-05-23 16:02:15.443][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2026-05-23 16:02:15.446][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2026-05-23 16:02:15.450][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-05-23 16:02:15.453][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-23 16:02:15.455][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-23 16:02:15.500][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:02:15.502][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:02:15.504][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:02:15.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-05-23 16:02:15.508][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:02:15.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:02:15.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:02:15.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:02:15.513][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:02:15.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:02:15.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:02:15.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:02:15.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:02:15.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:02:15.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:02:15.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-05-23 16:02:15.523][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-05-23 16:02:15.524][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-23 16:02:15.525][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-23 16:02:15.530][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:02:15.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:02:15.532][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:02:15.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-05-23 16:02:15.535][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:02:15.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:02:15.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:02:15.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:02:15.539][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:02:15.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:02:15.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:02:15.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:02:15.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:02:15.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:02:15.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:02:15.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-05-23 16:02:15.547][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-05-23 16:02:15.547][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-23 16:02:15.548][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-23 16:02:15.553][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:02:15.553][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:02:15.554][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:02:15.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-05-23 16:02:15.557][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:02:15.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:02:15.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:02:15.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:02:15.561][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-23 16:02:15.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-23 16:02:15.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:02:15.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:02:15.565][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:02:15.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:02:15.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:02:15.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:02:15.569][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:02:15.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:02:15.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:02:15.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:02:15.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:02:15.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:02:15.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:02:15.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:02:15.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:02:15.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:02:15.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:02:15.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:02:15.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:02:15.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:02:15.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:02:15.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:02:15.585][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:02:15.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:02:15.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:02:15.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:02:15.589][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:02:15.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:02:15.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:02:15.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:02:15.593][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:02:15.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:02:15.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:02:15.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:02:15.597][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:02:15.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:02:15.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:02:15.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:02:15.601][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:02:15.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:02:15.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:02:15.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:02:15.604][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:02:15.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:02:15.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:02:15.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:02:15.608][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:02:15.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:02:15.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:02:15.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:02:15.612][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:02:15.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:02:15.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:02:15.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:02:15.616][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:02:15.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:02:15.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:02:15.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:02:15.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:02:15.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:02:15.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:02:15.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:02:15.624][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-23 16:02:15.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-23 16:02:15.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:02:15.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-05-23 16:02:15.628][self$createEntryFromContent] Accession numbers: NA, NA, NA.
biodb.DEBUG[2026-05-23 16:02:15.629][self$createEntryFromContent] Found 3 entry/ies without an accession number. Set it/them to NULL.
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-05-23 16:02:15.761][biodb::testThat]
biodb.INFO [2026-05-23 16:02:15.762][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2026-05-23 16:02:15.763][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-23 16:02:15.764][biodb::testThat]
biodb.TRACE[2026-05-23 16:02:15.773][ef$get] Asked field names are: name.
biodb.TRACE[2026-05-23 16:02:15.774][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-05-23 16:02:15.775][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:02:15.776][ef$get] fields variable is a list.
biodb.DEBUG[2026-05-23 16:02:15.777][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-05-23 16:02:16.019][biodb::testThat]
biodb.INFO [2026-05-23 16:02:16.020][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2026-05-23 16:02:16.021][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-23 16:02:16.022][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-05-23 16:02:16.118][biodb::testThat]
biodb.INFO [2026-05-23 16:02:16.119][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2026-05-23 16:02:16.120][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-23 16:02:16.121][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-05-23 16:02:16.218][biodb::testThat]
biodb.INFO [2026-05-23 16:02:16.219][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2026-05-23 16:02:16.221][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-23 16:02:16.221][biodb::testThat]
biodb.INFO [2026-05-23 16:02:16.230][biodb::testThat]
biodb.INFO [2026-05-23 16:02:16.231][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2026-05-23 16:02:16.232][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-23 16:02:16.233][biodb::testThat]
biodb.INFO [2026-05-23 16:02:16.240][biodb::testThat]
biodb.INFO [2026-05-23 16:02:16.240][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2026-05-23 16:02:16.246][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-23 16:02:16.247][biodb::testThat]
biodb.DEBUG[2026-05-23 16:02:16.250][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2026-05-23 16:02:16.997][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2026-05-23 16:02:17.355][biodb::testThat]
biodb.INFO [2026-05-23 16:02:17.357][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2026-05-23 16:02:17.360][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-23 16:02:17.362][biodb::testThat]
biodb.TRACE[2026-05-23 16:02:17.396][ef$get] Asked field names are: name.
biodb.TRACE[2026-05-23 16:02:17.397][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-05-23 16:02:17.399][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:02:17.400][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:02:17.401][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:02:17.403][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:02:17.404][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:02:17.405][ef$get] fields variable is a list.
biodb.INFO [2026-05-23 16:02:17.407][biodb::testThat]
biodb.INFO [2026-05-23 16:02:17.408][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2026-05-23 16:02:17.410][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-23 16:02:17.411][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-05-23 16:02:17.511][biodb::testThat]
biodb.INFO [2026-05-23 16:02:17.512][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2026-05-23 16:02:17.513][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-23 16:02:17.514][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-05-23 16:02:17.716][biodb::testThat]
biodb.INFO [2026-05-23 16:02:17.717][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2026-05-23 16:02:17.718][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-23 16:02:17.719][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-05-23 16:02:17.760][biodb::testThat]
biodb.INFO [2026-05-23 16:02:17.761][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2026-05-23 16:02:17.762][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-23 16:02:17.763][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.TRACE[2026-05-23 16:02:17.804][ef$get] Asked field names are: name.
biodb.TRACE[2026-05-23 16:02:17.805][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-05-23 16:02:17.807][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:02:17.808][ef$get] fields variable is a list.
biodb.TRACE[2026-05-23 16:02:17.809][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:02:17.810][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-23 16:02:17.811][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-23 16:02:17.812][ef$get] fields variable is a list.
biodb.INFO [2026-05-23 16:02:17.814][biodb::testThat]
biodb.INFO [2026-05-23 16:02:17.815][biodb::testThat] Running test function  test.annotateMzValues_real_values  (" annotateMzValues() works correctly with real values. ").
biodb.INFO [2026-05-23 16:02:17.816][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-23 16:02:17.817][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-05-23 16:02:17.866][biodb::testThat]
biodb.INFO [2026-05-23 16:02:17.867][biodb::testThat] Running test function  test_annotateMzValues_additional_fields  (" Additional fields are accepted in annotateMzValues() ").
biodb.INFO [2026-05-23 16:02:17.868][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-23 16:02:17.869][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-05-23 16:02:17.917][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2026-05-23 16:02:17.919][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2026-05-23 16:02:17.920][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2026-05-23 16:02:17.921][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-23 16:02:17.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-23 16:02:17.923][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-23 16:02:17.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-23 16:02:17.925][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2026-05-23 16:02:17.926][FUN] Functions in observer 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 14 | WARN 0 | SKIP 1 | PASS 220 ]

══ Skipped tests (1) ═══════════════════════════════════════════════════════════
• empty test (1):

══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test_long_100_generic.R:17:1'): RT unit is defined when there is an RT value. ──
Error in `eval_bare(expr, quo_get_env(quo))`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─testthat::expect_true(...)
 4.     └─testthat::quasi_label(enquo(object), label)
 5.       └─rlang::eval_bare(expr, quo_get_env(quo))
── Failure ('test_long_100_generic.R:17:1'): We can search for an entry by searchable field ──
Expected `!is.null(entry)` to be TRUE.
Differences:
`actual`:   FALSE
`expected`: TRUE 

Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─testthat::expect_true(!is.null(entry))
── Error ('test_long_100_generic.R:17:1'): We can search for an entry by searchable field ──
Error in `entry$getFieldValue(f)`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
── Failure ('test_long_100_generic.R:17:1'): We can search for an entry by name. ──
Expected `!is.null(entry)` to be TRUE.
Differences:
`actual`:   FALSE
`expected`: TRUE 

Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─testthat::expect_true(!is.null(entry))
── Error ('test_long_100_generic.R:17:1'): We can search for an entry by name. ──
Error in `entry$getFieldValue("name")`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
── Failure ('test_long_100_generic.R:17:1'): We can load an entry from the database. ──
Expected `any(vapply(entries, is.null, FUN.VALUE = TRUE))` to be FALSE.
Differences:
`actual`:   TRUE 
`expected`: FALSE

Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─opt$refEntries$getRealEntry(id)
 4.     └─self$getRealEntries(ids = id)
 5.       └─testthat::expect_false(any(vapply(entries, is.null, FUN.VALUE = TRUE)))
── Failure ('test_long_100_generic.R:17:1'): We can load an entry from the database. ──
Expected `e` to inherit from "character".
Actual inheritance: "NULL"
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─testthat::expect_is(e, "BiodbEntry")
── Failure ('test_long_100_generic.R:17:1'): We can search for a compound ──────
Expected `!is.null(entry)` to be TRUE.
Differences:
`actual`:   FALSE
`expected`: TRUE 

Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(db = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─testthat::expect_true(!is.null(entry))
── Error ('test_long_100_generic.R:17:1'): We can search for a compound ────────
Error in `entry$getFieldValue("name")`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(db = `<ChebiCnn>`, opt = `<named list>`)
── Error ('test_long_100_generic.R:17:1'): annotateMzValues() accepts a single vector. ──
Error in `e$hasField(mf)`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─base::vapply(entries, function(e) e$hasField(mf), FUN.VALUE = TRUE)
 4.     └─biodb (local) FUN(X[[i]], ...)
── Error ('test_long_100_generic.R:17:1'): ppm tolerance works in annotateMzValues() ──
Error in `e$hasField(mf)`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─base::vapply(entries, function(e) e$hasField(mf), FUN.VALUE = TRUE)
 4.     └─biodb (local) FUN(X[[i]], ...)
── Error ('test_long_100_generic.R:17:1'): Input data frame is not modified by annotateMzValues() ──
Error in `e$hasField(mf)`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─base::vapply(entries, function(e) e$hasField(mf), FUN.VALUE = TRUE)
 4.     └─biodb (local) FUN(X[[i]], ...)
── Error ('test_long_100_generic.R:17:1'): annotateMzValues() works correctly with real values. ──
Error in `e$hasField(mf)`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─base::vapply(entries, function(e) e$hasField(mf), FUN.VALUE = TRUE)
 4.     └─biodb (local) FUN(X[[i]], ...)
── Error ('test_long_100_generic.R:17:1'): Additional fields are accepted in annotateMzValues() ──
Error in `e$hasField(mf)`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─base::vapply(entries, function(e) e$hasField(mf), FUN.VALUE = TRUE)
 4.     └─biodb (local) FUN(X[[i]], ...)

[ FAIL 14 | WARN 0 | SKIP 1 | PASS 220 ]
Error:
! Test failures.
Execution halted

'R CMD check' output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.23-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 biodbChebi_1.18.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck’
* using R version 4.6.0 RC (2026-04-17 r89917)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 13.3.0-6ubuntu2~24.04.1) 13.3.0
    GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04.1) 13.3.0
* running under: Ubuntu 24.04.4 LTS
* using session charset: UTF-8
* current time: 2026-05-23 20:01:06 UTC
* using options ‘--no-codoc --no-examples --no-manual --ignore-vignettes --no-stop-on-test-error’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.18.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking whether startup messages can be suppressed ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... SKIPPED
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking 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:
   3.   └─base::vapply(entries, function(e) e$hasField(mf), FUN.VALUE = TRUE)
   4.     └─biodb (local) FUN(X[[i]], ...)
  ── Error ('test_long_100_generic.R:17:1'): Additional fields are accepted in annotateMzValues() ──
  Error in `e$hasField(mf)`: attempt to apply non-function
  Backtrace:
      ▆
   1. ├─base::do.call(fct, params)
   2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
   3.   └─base::vapply(entries, function(e) e$hasField(mf), FUN.VALUE = TRUE)
   4.     └─biodb (local) FUN(X[[i]], ...)
  
  [ FAIL 14 | WARN 0 | SKIP 1 | PASS 220 ]
  Error:
  ! Test failures.
  Execution halted
* DONE

Status: 1 ERROR
See
  ‘/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck/00check.log’
for details.

Installation output

biodbChebi.Rcheck/00install.out

* installing *source* package ‘biodbChebi’ ...
** this is package ‘biodbChebi’ version ‘1.18.0’
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
Warning in fun(libname, pkgname) :
  Package 'biodbChebi' is deprecated and will be removed from
  Bioconductor version 3.24
** testing if installed package can be loaded from final location
Warning in fun(libname, pkgname) :
  Package 'biodbChebi' is deprecated and will be removed from
  Bioconductor version 3.24
** testing if installed package keeps a record of temporary installation path
* DONE (biodbChebi)