Back to Long Tests report for BioC 3.23

This page was generated on 2026-05-09 23:55 -0400 (Sat, 09 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" 4994
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: 2026-05-09 09:55 -0400 (Sat, 09 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: 2026-05-09 16:01:07 -0400 (Sat, 09 May 2026)
EndedAt: 2026-05-09 16:02:17 -0400 (Sat, 09 May 2026)
EllapsedTime: 70.0 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 [2026-05-09 16:01:46.698][biodb::testContext]
biodb.INFO [2026-05-09 16:01:46.700][biodb::testContext] ********************************************************************************
biodb.INFO [2026-05-09 16:01:46.701][biodb::testContext] Test context - Generic long tests
biodb.INFO [2026-05-09 16:01:46.702][biodb::testContext] ********************************************************************************
biodb.INFO [2026-05-09 16:01:46.703][biodb::testContext]
biodb.INFO [2026-05-09 16:01:46.709][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.20.0.
biodb.DEBUG[2026-05-09 16:01:46.711][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.23-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2026-05-09 16:01:46.718][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-05-09 16:01:46.719][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2026-05-09 16:01:46.720][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2026-05-09 16:01:46.721][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:46.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:46.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:46.724][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2026-05-09 16:01:46.741][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2026-05-09 16:01:46.741][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:46.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:46.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:46.744][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2026-05-09 16:01:46.745][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2026-05-09 16:01:46.746][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:46.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:46.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:46.749][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2026-05-09 16:01:46.750][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2026-05-09 16:01:46.751][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2026-05-09 16:01:46.752][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:46.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:46.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:46.755][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2026-05-09 16:01:46.756][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2026-05-09 16:01:46.757][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2026-05-09 16:01:46.758][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:46.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:46.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:46.760][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2026-05-09 16:01:46.761][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2026-05-09 16:01:46.762][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:46.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:46.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:46.765][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2026-05-09 16:01:46.766][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2026-05-09 16:01:46.767][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2026-05-09 16:01:46.768][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:46.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:46.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:46.771][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2026-05-09 16:01:46.772][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2026-05-09 16:01:46.773][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:46.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:46.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:46.775][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2026-05-09 16:01:46.776][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2026-05-09 16:01:46.777][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2026-05-09 16:01:46.778][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:46.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:46.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:46.788][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2026-05-09 16:01:46.789][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2026-05-09 16:01:46.790][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2026-05-09 16:01:46.791][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2026-05-09 16:01:46.792][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2026-05-09 16:01:46.793][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2026-05-09 16:01:46.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:46.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:46.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:46.797][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2026-05-09 16:01:46.798][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2026-05-09 16:01:46.799][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:46.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:46.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:46.801][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2026-05-09 16:01:46.802][self$set] Set key entries.sep to "|".
biodb.DEBUG[2026-05-09 16:01:46.803][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:46.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:46.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:46.806][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2026-05-09 16:01:46.807][self$set] Set key offline to FALSE.
biodb.DEBUG[2026-05-09 16:01:46.808][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:46.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:46.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:46.811][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2026-05-09 16:01:46.812][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2026-05-09 16:01:46.813][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2026-05-09 16:01:46.814][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:46.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:46.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:46.817][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2026-05-09 16:01:46.818][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2026-05-09 16:01:46.823][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2026-05-09 16:01:46.824][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:46.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:46.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:46.827][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2026-05-09 16:01:46.828][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2026-05-09 16:01:46.829][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2026-05-09 16:01:46.830][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:46.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:46.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:46.835][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2026-05-09 16:01:46.866][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-05-09 16:01:46.881][self$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[2026-05-09 16:01:46.882][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-05-09 16:01:46.883][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-05-09 16:01:46.884][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-05-09 16:01:46.885][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-05-09 16:01:46.886][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-05-09 16:01:46.887][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-05-09 16:01:46.888][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2026-05-09 16:01:46.889][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-05-09 16:01:46.890][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-05-09 16:01:46.891][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2026-05-09 16:01:46.892][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-05-09 16:01:46.893][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-05-09 16:01:46.894][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-05-09 16:01:46.895][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-05-09 16:01:46.895][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-05-09 16:01:46.895][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-05-09 16:01:46.895][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2026-05-09 16:01:46.895][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2026-05-09 16:01:46.896][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-05-09 16:01:46.897][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-05-09 16:01:46.898][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-05-09 16:01:46.899][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-05-09 16:01:46.900][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-05-09 16:01:46.901][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-05-09 16:01:46.902][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-05-09 16:01:46.903][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-05-09 16:01:46.904][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-05-09 16:01:46.905][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-05-09 16:01:46.905][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-05-09 16:01:46.906][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-05-09 16:01:46.908][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2026-05-09 16:01:46.909][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-05-09 16:01:46.910][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2026-05-09 16:01:46.911][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-05-09 16:01:46.912][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-05-09 16:01:46.913][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-05-09 16:01:46.914][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-05-09 16:01:46.915][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-05-09 16:01:46.916][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-05-09 16:01:46.917][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2026-05-09 16:01:46.918][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-05-09 16:01:46.919][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-05-09 16:01:46.920][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2026-05-09 16:01:46.921][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-05-09 16:01:46.922][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-05-09 16:01:46.923][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-05-09 16:01:46.924][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-05-09 16:01:46.924][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-05-09 16:01:46.924][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-05-09 16:01:46.924][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2026-05-09 16:01:46.924][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2026-05-09 16:01:46.925][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-05-09 16:01:46.926][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-05-09 16:01:46.927][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-05-09 16:01:46.928][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-05-09 16:01:46.929][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-05-09 16:01:46.930][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-05-09 16:01:46.931][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-05-09 16:01:46.932][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-05-09 16:01:46.933][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-05-09 16:01:46.933][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-05-09 16:01:46.934][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-05-09 16:01:46.935][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-05-09 16:01:46.937][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2026-05-09 16:01:46.938][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2026-05-09 16:01:46.939][self$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[2026-05-09 16:01:46.940][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-05-09 16:01:46.941][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-05-09 16:01:46.942][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-05-09 16:01:46.943][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-05-09 16:01:46.944][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-05-09 16:01:46.945][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-05-09 16:01:46.946][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2026-05-09 16:01:46.947][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-05-09 16:01:46.948][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2026-05-09 16:01:46.949][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2026-05-09 16:01:46.950][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-05-09 16:01:46.951][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-05-09 16:01:46.952][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-05-09 16:01:46.953][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2026-05-09 16:01:46.954][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-05-09 16:01:46.955][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-05-09 16:01:46.956][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-05-09 16:01:46.957][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-05-09 16:01:46.958][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-05-09 16:01:46.959][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-05-09 16:01:46.960][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-05-09 16:01:46.961][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-05-09 16:01:46.966][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-05-09 16:01:46.967][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-05-09 16:01:46.968][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-05-09 16:01:46.969][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-05-09 16:01:46.970][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2026-05-09 16:01:46.972][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2026-05-09 16:01:46.973][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2026-05-09 16:01:46.974][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-05-09 16:01:46.975][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-05-09 16:01:46.976][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-05-09 16:01:46.977][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-05-09 16:01:46.978][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-05-09 16:01:46.979][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-05-09 16:01:46.980][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2026-05-09 16:01:46.981][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-05-09 16:01:46.982][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2026-05-09 16:01:46.983][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2026-05-09 16:01:46.984][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-05-09 16:01:46.985][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-05-09 16:01:46.986][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-05-09 16:01:46.987][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2026-05-09 16:01:46.988][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-05-09 16:01:46.989][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-05-09 16:01:46.989][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-05-09 16:01:46.990][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-05-09 16:01:46.991][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-05-09 16:01:46.992][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-05-09 16:01:46.993][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-05-09 16:01:46.994][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-05-09 16:01:46.995][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-05-09 16:01:46.996][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-05-09 16:01:46.997][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-05-09 16:01:46.998][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-05-09 16:01:47.002][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-05-09 16:01:47.002][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:47.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:47.004][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:47.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:47.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:47.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:47.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:47.009][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:47.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:47.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:47.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:47.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:47.013][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:47.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:47.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:47.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:47.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:47.018][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:47.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:47.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:47.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:47.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:47.022][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:47.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:47.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:47.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:47.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:47.035][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:47.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:47.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:47.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:47.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:47.041][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:47.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:47.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:47.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:47.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:47.046][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:47.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:47.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:47.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:47.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:47.051][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:47.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:47.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:47.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:47.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:47.056][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:47.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:47.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:47.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:47.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:47.061][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:47.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:47.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:47.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:47.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:47.066][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:47.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:47.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:47.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:47.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:47.071][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:47.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:47.073][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:47.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:47.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:47.076][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:47.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:47.078][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:47.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:47.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:47.081][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:47.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:47.083][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:47.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:47.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:47.086][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:47.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:47.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:47.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:47.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:47.091][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2026-05-09 16:01:47.097][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2026-05-09 16:01:47.099][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2026-05-09 16:01:47.100][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2026-05-09 16:01:47.102][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2026-05-09 16:01:47.103][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2026-05-09 16:01:47.105][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2026-05-09 16:01:47.106][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2026-05-09 16:01:47.108][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2026-05-09 16:01:47.109][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2026-05-09 16:01:47.111][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2026-05-09 16:01:47.112][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2026-05-09 16:01:47.114][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2026-05-09 16:01:47.115][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2026-05-09 16:01:47.117][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2026-05-09 16:01:47.118][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2026-05-09 16:01:47.120][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2026-05-09 16:01:47.121][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2026-05-09 16:01:47.123][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2026-05-09 16:01:47.124][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2026-05-09 16:01:47.126][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2026-05-09 16:01:47.127][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2026-05-09 16:01:47.129][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2026-05-09 16:01:47.130][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2026-05-09 16:01:47.132][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2026-05-09 16:01:47.134][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2026-05-09 16:01:47.135][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2026-05-09 16:01:47.137][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2026-05-09 16:01:47.138][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2026-05-09 16:01:47.140][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2026-05-09 16:01:47.141][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2026-05-09 16:01:47.143][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2026-05-09 16:01:47.144][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2026-05-09 16:01:47.146][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2026-05-09 16:01:47.147][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2026-05-09 16:01:47.149][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2026-05-09 16:01:47.150][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2026-05-09 16:01:47.151][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2026-05-09 16:01:47.153][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2026-05-09 16:01:47.154][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2026-05-09 16:01:47.156][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2026-05-09 16:01:47.157][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2026-05-09 16:01:47.159][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2026-05-09 16:01:47.160][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2026-05-09 16:01:47.178][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2026-05-09 16:01:47.180][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2026-05-09 16:01:47.181][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2026-05-09 16:01:47.183][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2026-05-09 16:01:47.184][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2026-05-09 16:01:47.186][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2026-05-09 16:01:47.187][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2026-05-09 16:01:47.189][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2026-05-09 16:01:47.190][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2026-05-09 16:01:47.192][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2026-05-09 16:01:47.193][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2026-05-09 16:01:47.195][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2026-05-09 16:01:47.197][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2026-05-09 16:01:47.198][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2026-05-09 16:01:47.200][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2026-05-09 16:01:47.201][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2026-05-09 16:01:47.203][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2026-05-09 16:01:47.204][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2026-05-09 16:01:47.206][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2026-05-09 16:01:47.207][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2026-05-09 16:01:47.209][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2026-05-09 16:01:47.210][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2026-05-09 16:01:47.212][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2026-05-09 16:01:47.213][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2026-05-09 16:01:47.214][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2026-05-09 16:01:47.216][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2026-05-09 16:01:47.217][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2026-05-09 16:01:47.219][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2026-05-09 16:01:47.220][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2026-05-09 16:01:47.222][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2026-05-09 16:01:47.223][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2026-05-09 16:01:47.225][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2026-05-09 16:01:47.226][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2026-05-09 16:01:47.227][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2026-05-09 16:01:47.229][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2026-05-09 16:01:47.230][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2026-05-09 16:01:47.232][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2026-05-09 16:01:47.233][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2026-05-09 16:01:47.235][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2026-05-09 16:01:47.241][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2026-05-09 16:01:47.243][initialize] This is biodb version 1.20.0.
biodb.DEBUG[2026-05-09 16:01:47.246][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-05-09 16:01:47.247][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:47.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:47.248][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:47.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:47.254][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:47.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-09 16:01:47.256][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-09 16:01:47.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:47.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:47.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:47.259][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:47.260][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:47.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-09 16:01:47.262][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-09 16:01:47.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:47.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:47.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:47.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:47.266][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:47.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-09 16:01:47.268][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-09 16:01:47.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:47.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:47.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:47.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:47.272][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:47.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-09 16:01:47.274][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-09 16:01:47.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:47.276][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:47.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:47.278][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:47.278][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:47.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-09 16:01:47.280][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-09 16:01:47.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:47.282][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:47.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:47.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:47.285][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:47.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-09 16:01:47.286][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-09 16:01:47.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:47.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:47.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:47.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:47.291][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:47.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-09 16:01:47.292][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-09 16:01:47.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:47.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:47.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:47.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:47.297][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:47.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-09 16:01:47.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-09 16:01:47.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:47.300][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:47.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:47.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:47.303][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:47.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-09 16:01:47.305][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-09 16:01:47.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:47.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:47.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:47.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:47.309][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:47.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-09 16:01:47.311][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-09 16:01:47.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:47.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:47.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:47.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:47.315][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:47.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-09 16:01:47.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-09 16:01:47.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:47.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:47.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:47.320][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:47.321][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:47.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-09 16:01:47.323][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-09 16:01:47.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:47.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:47.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:47.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:47.328][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:47.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-09 16:01:47.329][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-09 16:01:47.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:47.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:47.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:47.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:47.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:47.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-09 16:01:47.335][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-09 16:01:47.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:47.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:47.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:47.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:47.340][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:47.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-09 16:01:47.342][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-09 16:01:47.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:47.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:47.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:47.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:47.346][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-09 16:01:47.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-09 16:01:47.352][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-09 16:01:47.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:47.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:47.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:47.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-09 16:01:47.357][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/definitions.yml".
biodb.DEBUG[2026-05-09 16:01:47.366][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2026-05-09 16:01:47.368][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-05-09 16:01:47.369][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2026-05-09 16:01:47.370][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-05-09 16:01:47.371][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-05-09 16:01:47.372][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-05-09 16:01:47.373][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-05-09 16:01:47.374][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2026-05-09 16:01:47.375][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2026-05-09 16:01:47.376][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2026-05-09 16:01:47.377][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-05-09 16:01:47.378][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-05-09 16:01:47.379][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2026-05-09 16:01:47.380][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-05-09 16:01:47.381][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2026-05-09 16:01:47.381][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2026-05-09 16:01:47.381][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2026-05-09 16:01:47.381][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2026-05-09 16:01:47.381][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2026-05-09 16:01:47.381][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2026-05-09 16:01:47.381][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2026-05-09 16:01:47.381][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2026-05-09 16:01:47.381][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2026-05-09 16:01:47.381][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2026-05-09 16:01:47.381][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2026-05-09 16:01:47.382][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2026-05-09 16:01:47.383][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-05-09 16:01:47.383][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-05-09 16:01:47.383][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-05-09 16:01:47.384][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2026-05-09 16:01:47.385][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-05-09 16:01:47.386][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-05-09 16:01:47.387][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-05-09 16:01:47.388][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-05-09 16:01:47.389][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-05-09 16:01:47.390][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-05-09 16:01:47.391][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2026-05-09 16:01:47.391][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2026-05-09 16:01:47.392][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-05-09 16:01:47.392][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-05-09 16:01:47.393][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2026-05-09 16:01:47.394][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2026-05-09 16:01:47.394][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2026-05-09 16:01:47.400][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2026-05-09 16:01:47.402][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2026-05-09 16:01:47.403][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2026-05-09 16:01:47.404][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2026-05-09 16:01:47.406][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2026-05-09 16:01:47.407][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2026-05-09 16:01:47.428][super$initialize] Initialize connector chebi.
biodb.DEBUG[2026-05-09 16:01:47.443][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2026-05-09 16:01:47.451][biodb::testThat]
biodb.INFO [2026-05-09 16:01:47.452][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2026-05-09 16:01:47.453][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-09 16:01:47.454][biodb::testThat]
biodb.TRACE[2026-05-09 16:01:47.457][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2026-05-09 16:01:47.459][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-05-09 16:01:47.462][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-05-09 16:01:47.470][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-05-09 16:01:47.471][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-09 16:01:47.472][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-09 16:01:47.484][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:47.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:47.486][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:47.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-05-09 16:01:47.496][ef$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:47.497][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:47.498][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.499][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.501][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:47.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:47.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.516][ef$get] Asked field names are: charge.
biodb.TRACE[2026-05-09 16:01:47.517][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-09 16:01:47.518][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.519][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.552][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-09 16:01:47.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-09 16:01:47.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.556][ef$get] Asked field names are: formula.
biodb.TRACE[2026-05-09 16:01:47.557][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-09 16:01:47.558][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.559][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.560][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-09 16:01:47.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-09 16:01:47.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.564][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-05-09 16:01:47.565][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-09 16:01:47.566][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.567][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.568][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-09 16:01:47.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-09 16:01:47.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.572][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-09 16:01:47.573][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-09 16:01:47.574][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.575][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.576][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-09 16:01:47.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-09 16:01:47.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.580][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:47.581][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:47.582][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.583][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.584][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:47.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:47.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.588][ef$get] Asked field names are: mass.
biodb.TRACE[2026-05-09 16:01:47.589][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:47.590][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.591][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.593][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-05-09 16:01:47.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:47.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.596][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:47.598][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:47.598][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.599][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.601][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:47.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:47.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.605][ef$get] Asked field names are: name.
biodb.TRACE[2026-05-09 16:01:47.606][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-05-09 16:01:47.607][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.608][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.609][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-09 16:01:47.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-09 16:01:47.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.613][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-05-09 16:01:47.614][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-09 16:01:47.615][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.616][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.617][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-05-09 16:01:47.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-09 16:01:47.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.621][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-05-09 16:01:47.622][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-09 16:01:47.623][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.624][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.625][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-09 16:01:47.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-09 16:01:47.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.629][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:01:47.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:01:47.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.633][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:01:47.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:01:47.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.637][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:47.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:47.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.641][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:01:47.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:01:47.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.645][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:47.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:47.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.649][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:47.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:47.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.652][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:47.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:47.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:47.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:47.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:47.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:47.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:47.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:47.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-05-09 16:01:47.702][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2026-05-09 16:01:47.704][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-09 16:01:47.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-09 16:01:47.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.708][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-09 16:01:47.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-09 16:01:47.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.733][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-09 16:01:47.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-09 16:01:47.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.737][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-09 16:01:47.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-09 16:01:47.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.741][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:47.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:47.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.745][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:47.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:47.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.749][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-05-09 16:01:47.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-05-09 16:01:47.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.753][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-05-09 16:01:47.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-05-09 16:01:47.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.757][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-05-09 16:01:47.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-05-09 16:01:47.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.761][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-05-09 16:01:47.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-05-09 16:01:47.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.767][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:47.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:47.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.782][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:01:47.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:01:47.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.790][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:47.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:47.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.835][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:47.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:47.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:47.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:47.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:47.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:47.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.849][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:47.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:47.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:47.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:47.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.858][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:01:47.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:01:47.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.862][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:01:47.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:01:47.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.866][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:01:47.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:01:47.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.877][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:47.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:47.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.881][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:47.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:47.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:47.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:47.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.889][ef$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:47.890][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:47.891][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.892][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.893][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:47.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:47.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.905][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:01:47.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:01:47.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.909][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:01:47.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:01:47.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.914][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:01:47.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:01:47.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.918][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:01:47.919][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:01:47.920][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.921][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.922][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:01:47.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:01:47.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.934][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-09 16:01:47.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-09 16:01:47.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.938][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-09 16:01:47.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-09 16:01:47.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.942][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-09 16:01:47.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-09 16:01:47.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.946][ef$get] Asked field names are: name.
biodb.TRACE[2026-05-09 16:01:47.947][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-05-09 16:01:47.948][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.949][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.950][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-09 16:01:47.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-09 16:01:47.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.962][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-09 16:01:47.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-09 16:01:47.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.966][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-09 16:01:47.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-09 16:01:47.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.970][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-09 16:01:47.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-09 16:01:47.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.974][ef$get] Asked field names are: formula.
biodb.TRACE[2026-05-09 16:01:47.976][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-09 16:01:47.977][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.978][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.983][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-09 16:01:47.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-09 16:01:47.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:47.995][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:47.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:47.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:47.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.000][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:48.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:48.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.004][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:48.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:48.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.008][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:48.009][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:48.010][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.011][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.012][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:48.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:48.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.024][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:48.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:48.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.028][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:48.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:48.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.033][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:48.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:48.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.037][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:48.038][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:48.039][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.040][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.041][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:48.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:48.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.053][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-09 16:01:48.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-09 16:01:48.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.057][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-09 16:01:48.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-09 16:01:48.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.061][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-09 16:01:48.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-09 16:01:48.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.066][ef$get] Asked field names are: charge.
biodb.TRACE[2026-05-09 16:01:48.067][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-09 16:01:48.068][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.069][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.070][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-09 16:01:48.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-09 16:01:48.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.082][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-09 16:01:48.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-09 16:01:48.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.086][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-09 16:01:48.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-09 16:01:48.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.090][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-09 16:01:48.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-09 16:01:48.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.094][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-09 16:01:48.095][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-09 16:01:48.096][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.097][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.098][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-09 16:01:48.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-09 16:01:48.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.110][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:48.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:48.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.114][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:48.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:48.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.119][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:48.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:48.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.123][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:48.124][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:48.125][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.126][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.131][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:48.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:48.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.143][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-09 16:01:48.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-09 16:01:48.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.147][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-09 16:01:48.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-09 16:01:48.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.152][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-09 16:01:48.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-09 16:01:48.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.156][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-05-09 16:01:48.157][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-09 16:01:48.158][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.159][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.160][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-09 16:01:48.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-09 16:01:48.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.172][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-09 16:01:48.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-09 16:01:48.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.176][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-09 16:01:48.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-09 16:01:48.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.180][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-09 16:01:48.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-09 16:01:48.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.184][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-09 16:01:48.185][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-09 16:01:48.186][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.187][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.188][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-09 16:01:48.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-09 16:01:48.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.200][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-09 16:01:48.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-09 16:01:48.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.205][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-09 16:01:48.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-09 16:01:48.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.209][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-09 16:01:48.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-09 16:01:48.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.213][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-05-09 16:01:48.214][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-09 16:01:48.215][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.216][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.217][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-09 16:01:48.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-09 16:01:48.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.230][ef$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:48.231][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:48.232][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.233][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.237][ef$get] Asked field names are: charge.
biodb.TRACE[2026-05-09 16:01:48.239][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-09 16:01:48.240][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.241][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.245][ef$get] Asked field names are: formula.
biodb.TRACE[2026-05-09 16:01:48.246][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-09 16:01:48.247][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.248][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.253][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-05-09 16:01:48.254][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-09 16:01:48.255][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.256][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.260][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-09 16:01:48.261][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-09 16:01:48.262][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.263][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.267][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:48.268][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:48.269][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.270][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.278][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:48.280][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:48.281][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.282][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.286][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:48.287][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:48.288][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.289][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.293][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-09 16:01:48.294][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-09 16:01:48.295][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.296][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.301][ef$get] Asked field names are: name.
biodb.TRACE[2026-05-09 16:01:48.302][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-05-09 16:01:48.303][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.304][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.308][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-05-09 16:01:48.309][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-09 16:01:48.310][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.311][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.328][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-2528-content.xml".
biodb.DEBUG[2026-05-09 16:01:48.363][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-05-09 16:01:48.364][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-05-09 16:01:48.366][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-05-09 16:01:48.367][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-09 16:01:48.368][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-09 16:01:48.372][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:48.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:48.374][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:48.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-05-09 16:01:48.377][ef$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:48.378][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:48.380][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.381][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.382][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:48.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:48.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.405][ef$get] Asked field names are: charge.
biodb.TRACE[2026-05-09 16:01:48.406][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-09 16:01:48.407][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.408][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.410][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-09 16:01:48.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-09 16:01:48.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.414][ef$get] Asked field names are: formula.
biodb.TRACE[2026-05-09 16:01:48.415][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-09 16:01:48.416][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.416][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.418][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-09 16:01:48.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-09 16:01:48.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.422][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-05-09 16:01:48.423][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-09 16:01:48.424][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.425][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.426][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-09 16:01:48.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-09 16:01:48.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.430][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-09 16:01:48.431][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-09 16:01:48.432][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.433][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.434][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-09 16:01:48.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-09 16:01:48.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.438][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:48.439][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:48.440][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.441][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.442][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:48.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:48.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.446][ef$get] Asked field names are: mass.
biodb.TRACE[2026-05-09 16:01:48.447][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:48.448][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.449][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.450][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-05-09 16:01:48.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:48.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.454][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:48.455][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:48.456][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.457][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.458][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:48.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:48.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.462][ef$get] Asked field names are: name.
biodb.TRACE[2026-05-09 16:01:48.463][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-05-09 16:01:48.464][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.465][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.466][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-09 16:01:48.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-09 16:01:48.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.471][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-05-09 16:01:48.472][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-09 16:01:48.472][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.473][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.475][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-05-09 16:01:48.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-09 16:01:48.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.479][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-05-09 16:01:48.480][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-09 16:01:48.481][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.481][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.483][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-09 16:01:48.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-09 16:01:48.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.487][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:01:48.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:01:48.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.491][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:01:48.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:01:48.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:48.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:48.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.498][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:01:48.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:01:48.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.502][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:48.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:48.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:48.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:48.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.510][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:48.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:48.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.514][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:48.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:48.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:48.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:48.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:48.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:48.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-05-09 16:01:48.526][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 2528.
biodb.TRACE[2026-05-09 16:01:48.549][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-09 16:01:48.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-09 16:01:48.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.553][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-09 16:01:48.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-09 16:01:48.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.557][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-09 16:01:48.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-09 16:01:48.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.560][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-09 16:01:48.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-09 16:01:48.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.564][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:48.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:48.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.568][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:48.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:48.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.572][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-05-09 16:01:48.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-05-09 16:01:48.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.576][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-05-09 16:01:48.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-05-09 16:01:48.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.580][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-05-09 16:01:48.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-05-09 16:01:48.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.584][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-05-09 16:01:48.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-05-09 16:01:48.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.589][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:48.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:48.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.596][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:01:48.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:01:48.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:48.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:48.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:48.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:48.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.611][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:48.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:48.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.616][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:48.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:48.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:48.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:48.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.624][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:48.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:48.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.628][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:01:48.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:01:48.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.632][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:01:48.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:01:48.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.636][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:01:48.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:01:48.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:48.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:48.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.658][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:48.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:48.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.662][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:48.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:48.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.666][ef$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:48.667][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:48.671][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.672][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.673][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:48.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:48.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.684][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:01:48.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:01:48.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.688][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:01:48.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:01:48.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.692][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:01:48.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:01:48.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.696][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:01:48.697][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:01:48.698][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.699][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:01:48.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:01:48.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.711][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-09 16:01:48.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-09 16:01:48.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.715][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-09 16:01:48.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-09 16:01:48.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.719][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-09 16:01:48.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-09 16:01:48.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.722][ef$get] Asked field names are: name.
biodb.TRACE[2026-05-09 16:01:48.723][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-05-09 16:01:48.724][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.725][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.726][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-09 16:01:48.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-09 16:01:48.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.737][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-09 16:01:48.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-09 16:01:48.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.741][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-09 16:01:48.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-09 16:01:48.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.745][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-09 16:01:48.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-09 16:01:48.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.749][ef$get] Asked field names are: formula.
biodb.TRACE[2026-05-09 16:01:48.750][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-09 16:01:48.751][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.752][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.753][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-09 16:01:48.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-09 16:01:48.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.763][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-05-09 16:01:48.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:48.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.767][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:48.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:48.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.771][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:48.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:48.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.775][ef$get] Asked field names are: mass.
biodb.TRACE[2026-05-09 16:01:48.776][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:48.777][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.778][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.779][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-05-09 16:01:48.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:48.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.789][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:48.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:48.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.793][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:48.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:48.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.797][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:48.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:48.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.801][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:48.806][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:48.807][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.808][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.809][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:48.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:48.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.819][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:48.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:48.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.823][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:48.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:48.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.827][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:48.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:48.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.831][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:48.832][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:48.833][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.834][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.835][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:48.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:48.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.845][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-09 16:01:48.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-09 16:01:48.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.849][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-09 16:01:48.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-09 16:01:48.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.853][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-09 16:01:48.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-09 16:01:48.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.857][ef$get] Asked field names are: charge.
biodb.TRACE[2026-05-09 16:01:48.858][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-09 16:01:48.859][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.860][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.861][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-09 16:01:48.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-09 16:01:48.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.872][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-09 16:01:48.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-09 16:01:48.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.875][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-09 16:01:48.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-09 16:01:48.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.879][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-09 16:01:48.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-09 16:01:48.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.883][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-09 16:01:48.884][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-09 16:01:48.885][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.886][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.887][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-09 16:01:48.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-09 16:01:48.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.898][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:48.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:48.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.902][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:48.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:48.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.905][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:48.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:48.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.909][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:48.910][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:48.911][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.912][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.913][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:48.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:48.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.924][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-09 16:01:48.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-09 16:01:48.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.928][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-09 16:01:48.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-09 16:01:48.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.932][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-09 16:01:48.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-09 16:01:48.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.939][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-05-09 16:01:48.940][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-09 16:01:48.941][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.942][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.943][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-09 16:01:48.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-09 16:01:48.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.954][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-09 16:01:48.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-09 16:01:48.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.958][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-09 16:01:48.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-09 16:01:48.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.962][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-09 16:01:48.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-09 16:01:48.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.966][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-09 16:01:48.967][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-09 16:01:48.967][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.968][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.969][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-09 16:01:48.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-09 16:01:48.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.980][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-09 16:01:48.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-09 16:01:48.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.984][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-09 16:01:48.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-09 16:01:48.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.988][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-09 16:01:48.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-09 16:01:48.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.992][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-05-09 16:01:48.993][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-09 16:01:48.994][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.995][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:48.996][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-09 16:01:48.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-09 16:01:48.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:48.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.007][ef$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:49.008][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:49.009][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.010][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.014][ef$get] Asked field names are: charge.
biodb.TRACE[2026-05-09 16:01:49.015][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-09 16:01:49.016][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.017][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.020][ef$get] Asked field names are: formula.
biodb.TRACE[2026-05-09 16:01:49.022][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-09 16:01:49.022][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.023][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.027][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-05-09 16:01:49.028][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-09 16:01:49.029][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.030][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.034][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-09 16:01:49.035][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-09 16:01:49.036][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.037][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.041][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:49.042][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:49.043][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.044][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.048][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:49.049][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:49.050][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.051][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.055][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:49.056][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:49.057][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.057][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.061][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-09 16:01:49.062][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-09 16:01:49.063][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.064][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.072][ef$get] Asked field names are: name.
biodb.TRACE[2026-05-09 16:01:49.073][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-05-09 16:01:49.074][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.075][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.079][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-05-09 16:01:49.080][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-09 16:01:49.081][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.082][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.086][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-7799-content.xml".
biodb.DEBUG[2026-05-09 16:01:49.087][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-05-09 16:01:49.088][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-05-09 16:01:49.090][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-05-09 16:01:49.090][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-09 16:01:49.091][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-09 16:01:49.095][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:49.096][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:49.097][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:49.098][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-05-09 16:01:49.100][ef$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:49.101][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:49.102][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.103][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.104][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:49.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:49.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.108][ef$get] Asked field names are: charge.
biodb.TRACE[2026-05-09 16:01:49.109][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-09 16:01:49.110][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.111][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.112][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-09 16:01:49.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-09 16:01:49.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.116][ef$get] Asked field names are: formula.
biodb.TRACE[2026-05-09 16:01:49.117][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-09 16:01:49.118][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.119][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.120][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-09 16:01:49.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-09 16:01:49.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.124][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-05-09 16:01:49.125][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-09 16:01:49.126][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.127][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.128][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-09 16:01:49.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-09 16:01:49.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.132][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-09 16:01:49.133][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-09 16:01:49.134][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.135][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.136][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-09 16:01:49.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-09 16:01:49.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.140][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:49.141][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:49.142][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.143][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.144][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:49.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:49.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.148][ef$get] Asked field names are: mass.
biodb.TRACE[2026-05-09 16:01:49.149][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:49.150][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.151][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.152][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-05-09 16:01:49.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:49.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.156][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:49.157][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:49.158][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.159][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.160][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:49.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:49.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.164][ef$get] Asked field names are: name.
biodb.TRACE[2026-05-09 16:01:49.165][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-05-09 16:01:49.166][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.167][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.168][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-09 16:01:49.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-09 16:01:49.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.172][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-05-09 16:01:49.173][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-09 16:01:49.174][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.175][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.176][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-05-09 16:01:49.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-09 16:01:49.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.180][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-05-09 16:01:49.181][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-09 16:01:49.182][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.183][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.184][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-09 16:01:49.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-09 16:01:49.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.188][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:01:49.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:01:49.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:01:49.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:01:49.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.196][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:49.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:49.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:01:49.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:01:49.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:49.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:49.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:49.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:49.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.216][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:49.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:49.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:49.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:49.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.224][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:49.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:49.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:49.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:49.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-05-09 16:01:49.232][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 7799.
biodb.TRACE[2026-05-09 16:01:49.234][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-09 16:01:49.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-09 16:01:49.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.238][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-09 16:01:49.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-09 16:01:49.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.242][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-09 16:01:49.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-09 16:01:49.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.245][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-09 16:01:49.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-09 16:01:49.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.249][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:49.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:49.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.253][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:49.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:49.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.257][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-05-09 16:01:49.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-05-09 16:01:49.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.261][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-05-09 16:01:49.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-05-09 16:01:49.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.265][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-05-09 16:01:49.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-05-09 16:01:49.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.269][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-05-09 16:01:49.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-05-09 16:01:49.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.274][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:49.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:49.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.281][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:01:49.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:01:49.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:49.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:49.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:49.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:49.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:49.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:49.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.302][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:49.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:49.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:49.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:49.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.309][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:49.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:49.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.314][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:01:49.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:01:49.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.317][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:01:49.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:01:49.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.321][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:01:49.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:01:49.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:49.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:49.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.334][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:49.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:49.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.338][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:49.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:49.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.342][ef$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:49.343][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:49.348][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.349][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.350][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:49.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:49.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.361][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-09 16:01:49.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-09 16:01:49.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.365][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-09 16:01:49.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-09 16:01:49.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.369][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-09 16:01:49.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-09 16:01:49.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.372][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-05-09 16:01:49.373][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-09 16:01:49.374][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.375][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.376][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-09 16:01:49.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-09 16:01:49.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.387][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-09 16:01:49.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-09 16:01:49.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.391][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-09 16:01:49.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-09 16:01:49.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.395][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-09 16:01:49.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-09 16:01:49.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.399][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-05-09 16:01:49.400][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-09 16:01:49.401][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.402][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.403][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-09 16:01:49.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-09 16:01:49.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.414][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-09 16:01:49.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-09 16:01:49.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.418][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-09 16:01:49.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-09 16:01:49.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.421][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-09 16:01:49.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-09 16:01:49.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.425][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-09 16:01:49.427][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-09 16:01:49.427][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.428][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.429][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-09 16:01:49.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-09 16:01:49.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.440][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:49.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:49.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.444][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:49.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:49.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.448][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:49.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:49.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.452][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:49.453][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:49.454][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.455][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.456][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:49.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:49.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.467][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:49.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:49.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.470][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:49.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:49.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.474][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:49.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:49.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.482][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:49.483][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:49.484][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.485][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.486][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:49.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:49.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.497][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:49.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:49.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.501][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:49.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:49.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.505][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:49.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:49.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.509][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:49.510][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:49.511][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.512][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.513][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:49.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:49.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.524][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-09 16:01:49.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-09 16:01:49.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.528][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-09 16:01:49.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-09 16:01:49.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.532][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-09 16:01:49.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-09 16:01:49.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.536][ef$get] Asked field names are: charge.
biodb.TRACE[2026-05-09 16:01:49.537][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-09 16:01:49.538][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.539][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.540][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-09 16:01:49.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-09 16:01:49.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.551][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-09 16:01:49.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-09 16:01:49.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.555][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-09 16:01:49.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-09 16:01:49.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.559][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-09 16:01:49.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-09 16:01:49.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.562][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-09 16:01:49.564][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-09 16:01:49.564][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.565][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.566][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-09 16:01:49.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-09 16:01:49.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.577][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-09 16:01:49.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-09 16:01:49.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.581][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-09 16:01:49.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-09 16:01:49.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.585][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-09 16:01:49.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-09 16:01:49.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.589][ef$get] Asked field names are: name.
biodb.TRACE[2026-05-09 16:01:49.590][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-05-09 16:01:49.591][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.592][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.593][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-09 16:01:49.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-09 16:01:49.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.604][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-09 16:01:49.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-09 16:01:49.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.608][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-09 16:01:49.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-09 16:01:49.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.612][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-09 16:01:49.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-09 16:01:49.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.619][ef$get] Asked field names are: formula.
biodb.TRACE[2026-05-09 16:01:49.620][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-09 16:01:49.621][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.622][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.623][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-09 16:01:49.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-09 16:01:49.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.634][ef$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:01:49.635][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:01:49.636][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.637][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.641][ef$get] Asked field names are: charge.
biodb.TRACE[2026-05-09 16:01:49.642][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-09 16:01:49.643][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.644][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.648][ef$get] Asked field names are: formula.
biodb.TRACE[2026-05-09 16:01:49.649][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-09 16:01:49.650][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.651][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.655][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-05-09 16:01:49.656][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-09 16:01:49.657][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.658][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.662][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-09 16:01:49.663][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-09 16:01:49.664][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.665][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.669][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:49.670][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-09 16:01:49.671][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.672][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.675][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:49.677][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-09 16:01:49.678][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.678][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.682][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:49.683][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:01:49.684][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.685][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.689][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-09 16:01:49.690][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-09 16:01:49.691][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.692][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.696][ef$get] Asked field names are: name.
biodb.TRACE[2026-05-09 16:01:49.697][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-05-09 16:01:49.698][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.699][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:01:49.703][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-05-09 16:01:49.704][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-09 16:01:49.705][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:01:49.706][ef$get] fields variable is a list.
biodb.INFO [2026-05-09 16:01:49.712][biodb::testThat]
biodb.INFO [2026-05-09 16:01:49.713][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2026-05-09 16:01:49.714][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-09 16:01:49.715][biodb::testThat]
biodb.DEBUG[2026-05-09 16:01:49.717][private$loadEntries] Creating entries from ids [3]: "15440, 2528, 7799".
biodb.DEBUG[2026-05-09 16:01:49.723][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2026-05-09 16:01:49.726][cch$loadContents] Load 3 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2026-05-09 16:01:49.727][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2026-05-09 16:01:49.728][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2026-05-09 16:01:49.729][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2026-05-09 16:01:49.730][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2026-05-09 16:01:49.736][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-05-09 16:01:49.737][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-09 16:01:49.738][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-09 16:01:49.742][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:49.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:49.743][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:49.744][FUN] Functions in observer 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[2026-05-09 16:01:49.746][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
fscache.INFO [2026-05-09 16:01:49.769][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2026-05-09 16:01:49.770][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-09 16:01:49.771][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-09 16:01:49.773][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-05-09 16:01:50.347][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[2026-05-09 16:01:50.349][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-09 16:01:50.351][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[2026-05-09 16:01:50.352][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 [2026-05-09 16:01:50.810][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-05-09 16:01:50.813][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-09 16:01:50.815][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-09 16:01:50.819][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-05-09 16:01:51.149][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[2026-05-09 16:01:51.150][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-09 16:01:51.151][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[2026-05-09 16:01:51.152][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 [2026-05-09 16:01:51.597][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-05-09 16:01:51.600][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-09 16:01:51.602][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-09 16:01:51.606][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-05-09 16:01:51.938][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[2026-05-09 16:01:51.941][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-09 16:01:51.943][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[2026-05-09 16:01:51.946][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 [2026-05-09 16:01:52.718][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-05-09 16:01:52.719][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-09 16:01:52.721][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-09 16:01:52.722][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-05-09 16:01:53.052][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[2026-05-09 16:01:53.055][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-09 16:01:53.058][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[2026-05-09 16:01:53.061][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 [2026-05-09 16:01:53.508][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-05-09 16:01:53.512][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-09 16:01:53.515][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-09 16:01:53.519][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-05-09 16:01:53.854][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[2026-05-09 16:01:53.855][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-09 16:01:53.857][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[2026-05-09 16:01:53.858][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 [2026-05-09 16:01:54.393][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-05-09 16:01:54.396][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-09 16:01:54.398][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-09 16:01:54.400][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-05-09 16:01:54.733][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[2026-05-09 16:01:54.737][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-09 16:01:54.740][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[2026-05-09 16:01:54.743][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 [2026-05-09 16:01:55.191][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-05-09 16:01:55.195][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-09 16:01:55.198][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-09 16:01:55.203][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-05-09 16:01:55.540][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[2026-05-09 16:01:55.542][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-09 16:01:55.544][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[2026-05-09 16:01:55.546][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 [2026-05-09 16:01:55.990][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-05-09 16:01:55.992][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-09 16:01:55.994][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-09 16:01:55.997][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-05-09 16:01:56.328][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[2026-05-09 16:01:56.330][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-09 16:01:56.333][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[2026-05-09 16:01:56.336][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 [2026-05-09 16:01:56.783][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-05-09 16:01:56.786][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-09 16:01:56.788][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-09 16:01:56.792][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-05-09 16:01:57.122][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[2026-05-09 16:01:57.124][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-09 16:01:57.126][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[2026-05-09 16:01:57.129][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 [2026-05-09 16:01:57.573][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-05-09 16:01:57.574][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-09 16:01:57.576][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-09 16:01:57.578][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-05-09 16:01:57.906][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[2026-05-09 16:01:57.908][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-09 16:01:57.911][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[2026-05-09 16:01:57.913][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 [2026-05-09 16:01:58.360][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
biodb.DEBUG[2026-05-09 16:01:58.365][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-05-09 16:01:58.368][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-09 16:01:58.370][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-09 16:01:58.384][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:01:58.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:01:58.389][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:01:58.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2026-05-09 16:01:58.457][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
fscache.INFO [2026-05-09 16:01:58.488][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2026-05-09 16:01:58.504][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-09 16:01:58.505][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-09 16:01:58.507][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-05-09 16:01:58.835][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-05-09 16:01:58.837][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-09 16:01:58.839][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-09 16:01:58.841][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-05-09 16:01:59.286][private$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[2026-05-09 16:01:59.289][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-09 16:01:59.291][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-09 16:01:59.295][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-05-09 16:01:59.626][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-05-09 16:01:59.629][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-09 16:01:59.631][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-09 16:01:59.633][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-05-09 16:02:00.079][private$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[2026-05-09 16:02:00.082][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-09 16:02:00.084][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-09 16:02:00.088][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-05-09 16:02:00.430][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-05-09 16:02:00.432][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-09 16:02:00.435][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-09 16:02:00.437][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-05-09 16:02:00.883][private$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[2026-05-09 16:02:00.886][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-09 16:02:00.888][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-09 16:02:00.891][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-05-09 16:02:01.223][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-05-09 16:02:01.225][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-09 16:02:01.228][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-09 16:02:01.230][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-05-09 16:02:01.678][private$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[2026-05-09 16:02:01.681][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-09 16:02:01.683][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-09 16:02:01.686][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-05-09 16:02:02.019][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-05-09 16:02:02.020][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-09 16:02:02.022][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-09 16:02:02.024][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-05-09 16:02:02.482][private$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[2026-05-09 16:02:02.487][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-09 16:02:02.489][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-09 16:02:02.493][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-05-09 16:02:02.834][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-05-09 16:02:02.836][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-09 16:02:02.839][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-09 16:02:02.841][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-05-09 16:02:03.288][private$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[2026-05-09 16:02:03.291][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-09 16:02:03.294][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-09 16:02:03.297][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-05-09 16:02:03.631][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-05-09 16:02:03.633][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-09 16:02:03.635][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-09 16:02:03.638][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-05-09 16:02:04.085][private$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[2026-05-09 16:02:04.087][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-09 16:02:04.145][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-09 16:02:04.147][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-05-09 16:02:04.479][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-05-09 16:02:04.482][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-09 16:02:04.485][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-09 16:02:04.487][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-05-09 16:02:04.936][private$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[2026-05-09 16:02:04.939][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-09 16:02:04.941][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-09 16:02:04.945][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-05-09 16:02:05.293][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-05-09 16:02:05.295][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-09 16:02:05.298][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-09 16:02:05.300][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-05-09 16:02:05.749][private$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[2026-05-09 16:02:05.752][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-09 16:02:05.754][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-09 16:02:05.758][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-05-09 16:02:06.089][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-05-09 16:02:06.091][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-09 16:02:06.093][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-09 16:02:06.095][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-05-09 16:02:06.542][private$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[2026-05-09 16:02:06.545][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-05-09 16:02:06.548][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-09 16:02:06.550][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-09 16:02:06.562][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:02:06.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:02:06.567][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:02:06.569][FUN] Functions in observer 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[2026-05-09 16:02:06.572][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
fscache.INFO [2026-05-09 16:02:06.577][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2026-05-09 16:02:06.580][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-09 16:02:06.583][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-09 16:02:06.585][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-05-09 16:02:06.917][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[2026-05-09 16:02:06.919][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-09 16:02:06.922][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[2026-05-09 16:02:06.925][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 [2026-05-09 16:02:07.372][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-05-09 16:02:07.375][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-09 16:02:07.378][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-09 16:02:07.381][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-05-09 16:02:07.714][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[2026-05-09 16:02:07.717][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-09 16:02:07.719][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[2026-05-09 16:02:07.721][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 [2026-05-09 16:02:08.168][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-05-09 16:02:08.171][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-09 16:02:08.174][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-09 16:02:08.178][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-05-09 16:02:08.508][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[2026-05-09 16:02:08.511][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-09 16:02:08.513][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[2026-05-09 16:02:08.516][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 [2026-05-09 16:02:08.966][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-05-09 16:02:08.969][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-09 16:02:08.971][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-09 16:02:08.975][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-05-09 16:02:09.306][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[2026-05-09 16:02:09.308][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-09 16:02:09.311][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[2026-05-09 16:02:09.313][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 [2026-05-09 16:02:09.763][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-05-09 16:02:09.767][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-09 16:02:09.770][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-09 16:02:09.774][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-05-09 16:02:10.109][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[2026-05-09 16:02:10.111][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-09 16:02:10.113][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[2026-05-09 16:02:10.114][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 [2026-05-09 16:02:10.560][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-05-09 16:02:10.563][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-09 16:02:10.566][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-09 16:02:10.569][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-05-09 16:02:10.904][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[2026-05-09 16:02:10.907][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-09 16:02:10.910][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[2026-05-09 16:02:10.913][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 [2026-05-09 16:02:11.364][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-05-09 16:02:11.367][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-09 16:02:11.370][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-09 16:02:11.374][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-05-09 16:02:11.706][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[2026-05-09 16:02:11.710][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-09 16:02:11.713][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[2026-05-09 16:02:11.716][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 [2026-05-09 16:02:12.167][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-05-09 16:02:12.170][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-09 16:02:12.173][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-09 16:02:12.177][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-05-09 16:02:12.511][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[2026-05-09 16:02:12.513][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-09 16:02:12.515][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[2026-05-09 16:02:12.517][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 [2026-05-09 16:02:12.966][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-05-09 16:02:12.969][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-09 16:02:12.972][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-09 16:02:12.975][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-05-09 16:02:13.308][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[2026-05-09 16:02:13.310][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-09 16:02:13.313][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[2026-05-09 16:02:13.316][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 [2026-05-09 16:02:13.764][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-05-09 16:02:13.767][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-09 16:02:13.770][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-09 16:02:13.773][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-05-09 16:02:14.106][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[2026-05-09 16:02:14.108][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-09 16:02:14.109][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[2026-05-09 16:02:14.111][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 [2026-05-09 16:02:14.559][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
fscache.INFO [2026-05-09 16:02:14.565][cch$saveContents] Save 3 contents to /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2026-05-09 16:02:14.568][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2026-05-09 16:02:14.572][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2026-05-09 16:02:14.632][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2026-05-09 16:02:14.636][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-05-09 16:02:14.637][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-09 16:02:14.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-09 16:02:14.644][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:02:14.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:02:14.646][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:02:14.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-05-09 16:02:14.649][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:02:14.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:02:14.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:02:14.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:02:14.654][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:02:14.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:02:14.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:02:14.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:02:14.658][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:02:14.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:02:14.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:02:14.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-05-09 16:02:14.662][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-05-09 16:02:14.663][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-09 16:02:14.664][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-09 16:02:14.669][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:02:14.670][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:02:14.671][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:02:14.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-05-09 16:02:14.674][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:02:14.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:02:14.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:02:14.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:02:14.678][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:02:14.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:02:14.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:02:14.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:02:14.682][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:02:14.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:02:14.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:02:14.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-05-09 16:02:14.686][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-05-09 16:02:14.687][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-09 16:02:14.688][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-09 16:02:14.693][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:02:14.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:02:14.695][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:02:14.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-05-09 16:02:14.698][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:02:14.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:02:14.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:02:14.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:02:14.702][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-09 16:02:14.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-09 16:02:14.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:02:14.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:02:14.706][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:02:14.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:02:14.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:02:14.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:02:14.710][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:02:14.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:02:14.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:02:14.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:02:14.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:02:14.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:02:14.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:02:14.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:02:14.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:02:14.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:02:14.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:02:14.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:02:14.723][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:02:14.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:02:14.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:02:14.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:02:14.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:02:14.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:02:14.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:02:14.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:02:14.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:02:14.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:02:14.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:02:14.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:02:14.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:02:14.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:02:14.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:02:14.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:02:14.740][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:02:14.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:02:14.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:02:14.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:02:14.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:02:14.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:02:14.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:02:14.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:02:14.748][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:02:14.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:02:14.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:02:14.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:02:14.752][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:02:14.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:02:14.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:02:14.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:02:14.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:02:14.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:02:14.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:02:14.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:02:14.760][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:02:14.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:02:14.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:02:14.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:02:14.764][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:02:14.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:02:14.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:02:14.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:02:14.768][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-09 16:02:14.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-09 16:02:14.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:02:14.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-05-09 16:02:14.776][self$createEntryFromContent] Accession numbers: NA, NA, NA.
biodb.DEBUG[2026-05-09 16:02:14.777][self$createEntryFromContent] Found 3 entry/ies without an accession number. Set it/them to NULL.
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-05-09 16:02:14.911][biodb::testThat]
biodb.INFO [2026-05-09 16:02:14.912][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2026-05-09 16:02:14.913][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-09 16:02:14.914][biodb::testThat]
biodb.TRACE[2026-05-09 16:02:14.917][ef$get] Asked field names are: name.
biodb.TRACE[2026-05-09 16:02:14.918][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-05-09 16:02:14.919][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:02:14.920][ef$get] fields variable is a list.
biodb.DEBUG[2026-05-09 16:02:14.922][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 [2026-05-09 16:02:15.164][biodb::testThat]
biodb.INFO [2026-05-09 16:02:15.165][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2026-05-09 16:02:15.166][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-09 16:02:15.167][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-05-09 16:02:15.412][biodb::testThat]
biodb.INFO [2026-05-09 16:02:15.413][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2026-05-09 16:02:15.414][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-09 16:02:15.415][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-05-09 16:02:15.519][biodb::testThat]
biodb.INFO [2026-05-09 16:02:15.521][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2026-05-09 16:02:15.522][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-09 16:02:15.523][biodb::testThat]
biodb.INFO [2026-05-09 16:02:15.532][biodb::testThat]
biodb.INFO [2026-05-09 16:02:15.533][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2026-05-09 16:02:15.534][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-09 16:02:15.535][biodb::testThat]
biodb.INFO [2026-05-09 16:02:15.543][biodb::testThat]
biodb.INFO [2026-05-09 16:02:15.544][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2026-05-09 16:02:15.545][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-09 16:02:15.546][biodb::testThat]
biodb.DEBUG[2026-05-09 16:02:15.550][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2026-05-09 16:02:16.051][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2026-05-09 16:02:16.419][biodb::testThat]
biodb.INFO [2026-05-09 16:02:16.422][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2026-05-09 16:02:16.424][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-09 16:02:16.427][biodb::testThat]
biodb.TRACE[2026-05-09 16:02:16.463][ef$get] Asked field names are: name.
biodb.TRACE[2026-05-09 16:02:16.465][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-05-09 16:02:16.466][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:02:16.468][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:02:16.469][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:02:16.470][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:02:16.472][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:02:16.473][ef$get] fields variable is a list.
biodb.INFO [2026-05-09 16:02:16.475][biodb::testThat]
biodb.INFO [2026-05-09 16:02:16.476][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2026-05-09 16:02:16.477][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-09 16:02:16.478][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-05-09 16:02:16.598][biodb::testThat]
biodb.INFO [2026-05-09 16:02:16.599][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2026-05-09 16:02:16.600][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-09 16:02:16.601][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-05-09 16:02:16.641][biodb::testThat]
biodb.INFO [2026-05-09 16:02:16.642][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2026-05-09 16:02:16.643][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-09 16:02:16.644][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-05-09 16:02:16.684][biodb::testThat]
biodb.INFO [2026-05-09 16:02:16.686][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2026-05-09 16:02:16.687][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-09 16:02:16.688][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.TRACE[2026-05-09 16:02:16.729][ef$get] Asked field names are: name.
biodb.TRACE[2026-05-09 16:02:16.730][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-05-09 16:02:16.731][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:02:16.732][ef$get] fields variable is a list.
biodb.TRACE[2026-05-09 16:02:16.733][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:02:16.734][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-09 16:02:16.735][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-09 16:02:16.736][ef$get] fields variable is a list.
biodb.INFO [2026-05-09 16:02:16.737][biodb::testThat]
biodb.INFO [2026-05-09 16:02:16.738][biodb::testThat] Running test function  test.annotateMzValues_real_values  (" annotateMzValues() works correctly with real values. ").
biodb.INFO [2026-05-09 16:02:16.739][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-09 16:02:16.740][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-05-09 16:02:16.781][biodb::testThat]
biodb.INFO [2026-05-09 16:02:16.782][biodb::testThat] Running test function  test_annotateMzValues_additional_fields  (" Additional fields are accepted in annotateMzValues() ").
biodb.INFO [2026-05-09 16:02:16.783][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-09 16:02:16.784][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-05-09 16:02:16.825][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2026-05-09 16:02:16.826][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2026-05-09 16:02:16.827][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2026-05-09 16:02:16.828][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-09 16:02:16.829][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-09 16:02:16.830][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-09 16:02:16.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-09 16:02:16.831][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2026-05-09 16:02:16.832][FUN] Functions in observer 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: 2026-05-09 20:01:08 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)