Back to Long Tests report for BioC 3.23

This page was generated on 2026-05-02 23:55 -0400 (Sat, 02 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" 4988
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: 2026-05-02 09:55 -0400 (Sat, 02 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: 2026-05-02 16:01:06 -0400 (Sat, 02 May 2026)
EndedAt: 2026-05-02 16:02:19 -0400 (Sat, 02 May 2026)
EllapsedTime: 73.0 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 [2026-05-02 16:01:45.613][biodb::testContext]
biodb.INFO [2026-05-02 16:01:45.615][biodb::testContext] ********************************************************************************
biodb.INFO [2026-05-02 16:01:45.616][biodb::testContext] Test context - Generic long tests
biodb.INFO [2026-05-02 16:01:45.616][biodb::testContext] ********************************************************************************
biodb.INFO [2026-05-02 16:01:45.617][biodb::testContext]
biodb.INFO [2026-05-02 16:01:45.624][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.20.0.
biodb.DEBUG[2026-05-02 16:01:45.626][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.23-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2026-05-02 16:01:45.632][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-05-02 16:01:45.633][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2026-05-02 16:01:45.635][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2026-05-02 16:01:45.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:45.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:45.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:45.638][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2026-05-02 16:01:45.655][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2026-05-02 16:01:45.656][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:45.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:45.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:45.659][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2026-05-02 16:01:45.660][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2026-05-02 16:01:45.660][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:45.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:45.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:45.663][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2026-05-02 16:01:45.664][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2026-05-02 16:01:45.665][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2026-05-02 16:01:45.666][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:45.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:45.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:45.669][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2026-05-02 16:01:45.670][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2026-05-02 16:01:45.671][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2026-05-02 16:01:45.672][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:45.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:45.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:45.675][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2026-05-02 16:01:45.676][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2026-05-02 16:01:45.677][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:45.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:45.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:45.680][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2026-05-02 16:01:45.681][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2026-05-02 16:01:45.682][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2026-05-02 16:01:45.682][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:45.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:45.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:45.685][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2026-05-02 16:01:45.686][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2026-05-02 16:01:45.687][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:45.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:45.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:45.690][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2026-05-02 16:01:45.691][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2026-05-02 16:01:45.692][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2026-05-02 16:01:45.693][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:45.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:45.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:45.703][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2026-05-02 16:01:45.704][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2026-05-02 16:01:45.705][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2026-05-02 16:01:45.706][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2026-05-02 16:01:45.707][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2026-05-02 16:01:45.708][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2026-05-02 16:01:45.709][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:45.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:45.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:45.712][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2026-05-02 16:01:45.713][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2026-05-02 16:01:45.713][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:45.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:45.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:45.716][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2026-05-02 16:01:45.717][self$set] Set key entries.sep to "|".
biodb.DEBUG[2026-05-02 16:01:45.718][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:45.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:45.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:45.721][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2026-05-02 16:01:45.722][self$set] Set key offline to FALSE.
biodb.DEBUG[2026-05-02 16:01:45.723][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:45.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:45.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:45.726][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2026-05-02 16:01:45.727][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2026-05-02 16:01:45.728][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2026-05-02 16:01:45.728][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:45.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:45.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:45.731][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2026-05-02 16:01:45.732][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2026-05-02 16:01:45.736][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2026-05-02 16:01:45.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:45.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:45.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:45.739][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2026-05-02 16:01:45.740][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2026-05-02 16:01:45.741][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2026-05-02 16:01:45.742][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:45.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:45.744][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".
biodb.DEBUG[2026-05-02 16:01:45.747][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2026-05-02 16:01:45.778][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-05-02 16:01:45.793][self$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[2026-05-02 16:01:45.794][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-05-02 16:01:45.795][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-05-02 16:01:45.796][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-05-02 16:01:45.797][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-05-02 16:01:45.798][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-05-02 16:01:45.799][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-05-02 16:01:45.800][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2026-05-02 16:01:45.801][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-05-02 16:01:45.803][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-05-02 16:01:45.804][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2026-05-02 16:01:45.805][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-05-02 16:01:45.806][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-05-02 16:01:45.807][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-05-02 16:01:45.808][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-05-02 16:01:45.808][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-05-02 16:01:45.808][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-05-02 16:01:45.808][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2026-05-02 16:01:45.808][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2026-05-02 16:01:45.809][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-05-02 16:01:45.810][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-05-02 16:01:45.811][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-05-02 16:01:45.812][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-05-02 16:01:45.812][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-05-02 16:01:45.813][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-05-02 16:01:45.814][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-05-02 16:01:45.815][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-05-02 16:01:45.816][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-05-02 16:01:45.817][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-05-02 16:01:45.818][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-05-02 16:01:45.819][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-05-02 16:01:45.820][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2026-05-02 16:01:45.822][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-05-02 16:01:45.823][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2026-05-02 16:01:45.824][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-05-02 16:01:45.825][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-05-02 16:01:45.826][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-05-02 16:01:45.827][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-05-02 16:01:45.828][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-05-02 16:01:45.829][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-05-02 16:01:45.830][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2026-05-02 16:01:45.831][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-05-02 16:01:45.832][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-05-02 16:01:45.833][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2026-05-02 16:01:45.834][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-05-02 16:01:45.835][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-05-02 16:01:45.836][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-05-02 16:01:45.837][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-05-02 16:01:45.837][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-05-02 16:01:45.837][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-05-02 16:01:45.837][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2026-05-02 16:01:45.837][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2026-05-02 16:01:45.838][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-05-02 16:01:45.839][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-05-02 16:01:45.840][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-05-02 16:01:45.841][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-05-02 16:01:45.842][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-05-02 16:01:45.842][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-05-02 16:01:45.843][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-05-02 16:01:45.844][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-05-02 16:01:45.845][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-05-02 16:01:45.846][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-05-02 16:01:45.847][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-05-02 16:01:45.848][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-05-02 16:01:45.849][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2026-05-02 16:01:45.851][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2026-05-02 16:01:45.852][self$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[2026-05-02 16:01:45.853][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-05-02 16:01:45.854][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-05-02 16:01:45.855][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-05-02 16:01:45.856][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-05-02 16:01:45.857][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-05-02 16:01:45.858][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-05-02 16:01:45.859][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2026-05-02 16:01:45.860][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-05-02 16:01:45.861][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2026-05-02 16:01:45.862][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2026-05-02 16:01:45.863][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-05-02 16:01:45.864][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-05-02 16:01:45.865][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-05-02 16:01:45.866][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2026-05-02 16:01:45.867][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-05-02 16:01:45.868][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-05-02 16:01:45.869][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-05-02 16:01:45.870][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-05-02 16:01:45.871][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-05-02 16:01:45.872][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-05-02 16:01:45.873][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-05-02 16:01:45.874][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-05-02 16:01:45.879][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-05-02 16:01:45.880][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-05-02 16:01:45.881][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-05-02 16:01:45.882][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-05-02 16:01:45.883][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2026-05-02 16:01:45.885][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2026-05-02 16:01:45.886][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2026-05-02 16:01:45.887][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-05-02 16:01:45.888][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-05-02 16:01:45.889][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-05-02 16:01:45.890][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-05-02 16:01:45.891][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-05-02 16:01:45.892][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-05-02 16:01:45.893][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2026-05-02 16:01:45.894][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-05-02 16:01:45.895][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2026-05-02 16:01:45.896][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2026-05-02 16:01:45.897][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-05-02 16:01:45.898][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-05-02 16:01:45.899][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-05-02 16:01:45.900][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2026-05-02 16:01:45.901][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-05-02 16:01:45.902][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-05-02 16:01:45.903][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-05-02 16:01:45.904][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-05-02 16:01:45.905][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-05-02 16:01:45.906][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-05-02 16:01:45.906][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-05-02 16:01:45.907][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-05-02 16:01:45.908][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-05-02 16:01:45.909][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-05-02 16:01:45.910][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-05-02 16:01:45.911][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-05-02 16:01:45.915][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-05-02 16:01:45.916][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:45.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:45.918][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:45.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:45.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:45.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:45.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:45.922][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:45.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:45.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:45.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:45.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:45.927][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:45.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:45.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:45.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:45.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:45.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:45.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:45.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:45.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:45.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:45.936][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:45.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:45.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:45.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:45.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:45.940][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:45.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:45.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:45.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:45.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:45.945][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:45.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:45.946][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:45.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:45.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:45.949][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:45.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:45.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:45.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:45.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:45.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:45.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:45.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:45.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:45.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:45.968][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:45.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:45.970][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:45.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:45.972][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:45.973][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:45.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:45.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:45.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:45.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:45.978][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:45.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:45.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:45.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:45.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:45.983][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:45.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:45.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:45.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:45.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:45.988][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:45.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:45.990][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:45.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:45.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:45.993][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:45.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:45.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:45.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:45.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:45.998][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:45.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:46.000][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:46.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:46.002][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:46.003][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2026-05-02 16:01:46.009][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2026-05-02 16:01:46.011][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2026-05-02 16:01:46.013][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2026-05-02 16:01:46.014][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2026-05-02 16:01:46.016][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2026-05-02 16:01:46.017][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2026-05-02 16:01:46.019][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2026-05-02 16:01:46.020][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2026-05-02 16:01:46.022][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2026-05-02 16:01:46.023][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2026-05-02 16:01:46.025][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2026-05-02 16:01:46.026][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2026-05-02 16:01:46.028][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2026-05-02 16:01:46.029][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2026-05-02 16:01:46.031][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2026-05-02 16:01:46.032][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2026-05-02 16:01:46.034][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2026-05-02 16:01:46.035][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2026-05-02 16:01:46.037][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2026-05-02 16:01:46.038][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2026-05-02 16:01:46.040][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2026-05-02 16:01:46.041][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2026-05-02 16:01:46.043][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2026-05-02 16:01:46.044][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2026-05-02 16:01:46.046][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2026-05-02 16:01:46.047][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2026-05-02 16:01:46.049][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2026-05-02 16:01:46.050][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2026-05-02 16:01:46.052][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2026-05-02 16:01:46.053][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2026-05-02 16:01:46.055][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2026-05-02 16:01:46.056][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2026-05-02 16:01:46.058][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2026-05-02 16:01:46.059][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2026-05-02 16:01:46.061][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2026-05-02 16:01:46.062][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2026-05-02 16:01:46.064][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2026-05-02 16:01:46.065][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2026-05-02 16:01:46.067][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2026-05-02 16:01:46.068][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2026-05-02 16:01:46.070][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2026-05-02 16:01:46.072][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2026-05-02 16:01:46.073][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2026-05-02 16:01:46.092][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2026-05-02 16:01:46.093][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2026-05-02 16:01:46.095][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2026-05-02 16:01:46.097][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2026-05-02 16:01:46.098][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2026-05-02 16:01:46.100][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2026-05-02 16:01:46.101][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2026-05-02 16:01:46.103][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2026-05-02 16:01:46.104][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2026-05-02 16:01:46.106][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2026-05-02 16:01:46.107][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2026-05-02 16:01:46.109][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2026-05-02 16:01:46.111][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2026-05-02 16:01:46.112][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2026-05-02 16:01:46.114][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2026-05-02 16:01:46.115][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2026-05-02 16:01:46.117][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2026-05-02 16:01:46.118][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2026-05-02 16:01:46.120][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2026-05-02 16:01:46.121][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2026-05-02 16:01:46.123][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2026-05-02 16:01:46.124][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2026-05-02 16:01:46.126][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2026-05-02 16:01:46.127][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2026-05-02 16:01:46.129][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2026-05-02 16:01:46.130][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2026-05-02 16:01:46.131][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2026-05-02 16:01:46.133][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2026-05-02 16:01:46.134][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2026-05-02 16:01:46.136][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2026-05-02 16:01:46.137][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2026-05-02 16:01:46.139][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2026-05-02 16:01:46.140][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2026-05-02 16:01:46.142][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2026-05-02 16:01:46.143][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2026-05-02 16:01:46.145][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2026-05-02 16:01:46.146][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2026-05-02 16:01:46.148][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2026-05-02 16:01:46.149][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2026-05-02 16:01:46.156][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2026-05-02 16:01:46.157][initialize] This is biodb version 1.20.0.
biodb.DEBUG[2026-05-02 16:01:46.161][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-05-02 16:01:46.162][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:46.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:46.164][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:46.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:46.169][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:46.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-02 16:01:46.171][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-02 16:01:46.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:46.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:46.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:46.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:46.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:46.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-02 16:01:46.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-02 16:01:46.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:46.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:46.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:46.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:46.182][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:46.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-02 16:01:46.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-02 16:01:46.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:46.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:46.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:46.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:46.188][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:46.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-02 16:01:46.189][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-02 16:01:46.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:46.191][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:46.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:46.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:46.194][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:46.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-02 16:01:46.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-02 16:01:46.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:46.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:46.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:46.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:46.200][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:46.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-02 16:01:46.202][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-02 16:01:46.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:46.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:46.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:46.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:46.206][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:46.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-02 16:01:46.208][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-02 16:01:46.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:46.210][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:46.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:46.212][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:46.213][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:46.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-02 16:01:46.214][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-02 16:01:46.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:46.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:46.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:46.218][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:46.219][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:46.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-02 16:01:46.220][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-02 16:01:46.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:46.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:46.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:46.224][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:46.225][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:46.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-02 16:01:46.227][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-02 16:01:46.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:46.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:46.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:46.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:46.231][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:46.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-02 16:01:46.233][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-02 16:01:46.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:46.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:46.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:46.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:46.237][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:46.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-02 16:01:46.239][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-02 16:01:46.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:46.241][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:46.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:46.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:46.243][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:46.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-02 16:01:46.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-02 16:01:46.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:46.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:46.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:46.249][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[2026-05-02 16:01:46.250][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:46.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-02 16:01:46.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-02 16:01:46.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:46.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:46.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:46.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:46.256][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:46.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-02 16:01:46.258][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-02 16:01:46.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:46.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:46.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:46.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-05-02 16:01:46.262][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-05-02 16:01:46.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-02 16:01:46.264][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-02 16:01:46.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:46.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:46.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:46.271][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[2026-05-02 16:01:46.273][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/definitions.yml".
biodb.DEBUG[2026-05-02 16:01:46.282][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2026-05-02 16:01:46.284][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-05-02 16:01:46.285][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2026-05-02 16:01:46.286][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-05-02 16:01:46.287][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-05-02 16:01:46.288][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-05-02 16:01:46.289][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-05-02 16:01:46.290][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2026-05-02 16:01:46.291][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2026-05-02 16:01:46.292][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2026-05-02 16:01:46.293][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-05-02 16:01:46.294][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-05-02 16:01:46.295][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2026-05-02 16:01:46.296][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-05-02 16:01:46.297][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2026-05-02 16:01:46.297][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2026-05-02 16:01:46.297][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2026-05-02 16:01:46.297][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2026-05-02 16:01:46.297][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2026-05-02 16:01:46.297][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2026-05-02 16:01:46.297][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2026-05-02 16:01:46.297][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2026-05-02 16:01:46.297][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2026-05-02 16:01:46.297][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2026-05-02 16:01:46.297][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2026-05-02 16:01:46.298][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2026-05-02 16:01:46.299][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-05-02 16:01:46.299][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-05-02 16:01:46.299][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-05-02 16:01:46.300][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2026-05-02 16:01:46.301][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-05-02 16:01:46.302][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-05-02 16:01:46.303][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-05-02 16:01:46.304][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-05-02 16:01:46.305][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-05-02 16:01:46.306][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-05-02 16:01:46.307][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2026-05-02 16:01:46.307][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2026-05-02 16:01:46.308][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-05-02 16:01:46.309][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-05-02 16:01:46.310][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2026-05-02 16:01:46.311][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2026-05-02 16:01:46.311][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2026-05-02 16:01:46.316][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2026-05-02 16:01:46.318][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2026-05-02 16:01:46.319][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2026-05-02 16:01:46.321][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2026-05-02 16:01:46.322][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2026-05-02 16:01:46.324][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2026-05-02 16:01:46.345][super$initialize] Initialize connector chebi.
biodb.DEBUG[2026-05-02 16:01:46.360][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2026-05-02 16:01:46.368][biodb::testThat]
biodb.INFO [2026-05-02 16:01:46.369][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2026-05-02 16:01:46.370][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-02 16:01:46.371][biodb::testThat]
biodb.TRACE[2026-05-02 16:01:46.374][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2026-05-02 16:01:46.376][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-05-02 16:01:46.379][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-05-02 16:01:46.387][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-05-02 16:01:46.388][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-02 16:01:46.389][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-02 16:01:46.401][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:46.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:46.403][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:46.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-05-02 16:01:46.413][ef$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:46.414][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:46.415][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.416][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:46.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:46.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.433][ef$get] Asked field names are: charge.
biodb.TRACE[2026-05-02 16:01:46.434][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-02 16:01:46.435][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.436][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.469][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-02 16:01:46.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-02 16:01:46.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.473][ef$get] Asked field names are: formula.
biodb.TRACE[2026-05-02 16:01:46.474][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-02 16:01:46.475][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.476][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.477][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-02 16:01:46.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-02 16:01:46.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.482][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-05-02 16:01:46.483][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-02 16:01:46.484][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.484][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.486][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-02 16:01:46.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-02 16:01:46.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.490][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-02 16:01:46.491][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-02 16:01:46.492][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.493][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.494][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-02 16:01:46.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-02 16:01:46.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.498][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:46.499][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:46.500][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.501][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.502][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:46.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:46.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.506][ef$get] Asked field names are: mass.
biodb.TRACE[2026-05-02 16:01:46.507][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:46.508][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.509][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.510][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-05-02 16:01:46.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:46.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.514][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:46.515][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:46.516][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.517][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.518][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:46.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:46.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.522][ef$get] Asked field names are: name.
biodb.TRACE[2026-05-02 16:01:46.523][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-05-02 16:01:46.524][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.525][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.526][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-02 16:01:46.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-02 16:01:46.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.531][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-05-02 16:01:46.532][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-02 16:01:46.533][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.533][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.535][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-05-02 16:01:46.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-02 16:01:46.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.539][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-05-02 16:01:46.540][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-02 16:01:46.541][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.542][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.543][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-02 16:01:46.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-02 16:01:46.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.547][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:01:46.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:01:46.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.551][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:01:46.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:01:46.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:46.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:46.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.559][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:01:46.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:01:46.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.563][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:46.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:46.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.566][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:46.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:46.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.570][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:46.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:46.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:46.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:46.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.613][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:46.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:46.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.617][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:46.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:46.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-05-02 16:01:46.621][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2026-05-02 16:01:46.623][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-02 16:01:46.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-02 16:01:46.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.627][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-02 16:01:46.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-02 16:01:46.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.652][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-02 16:01:46.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-02 16:01:46.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.656][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-02 16:01:46.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-02 16:01:46.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.660][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:46.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:46.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.664][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:46.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:46.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.668][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-05-02 16:01:46.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-05-02 16:01:46.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.672][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-05-02 16:01:46.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-05-02 16:01:46.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.676][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-05-02 16:01:46.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-05-02 16:01:46.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.680][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-05-02 16:01:46.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-05-02 16:01:46.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:46.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:46.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.701][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:01:46.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:01:46.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.708][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:46.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:46.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.753][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:46.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:46.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.758][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:46.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:46.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:46.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:46.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.767][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:46.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:46.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.771][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:46.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:46.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.775][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:01:46.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:01:46.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:01:46.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:01:46.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.783][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:01:46.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:01:46.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.793][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:46.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:46.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.797][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:46.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:46.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.801][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:46.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:46.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.805][ef$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:46.807][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:46.807][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.808][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.809][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:46.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:46.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.821][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:01:46.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:01:46.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.825][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:01:46.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:01:46.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:01:46.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:01:46.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.833][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:01:46.834][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:01:46.835][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.835][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.836][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:01:46.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:01:46.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.847][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-02 16:01:46.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-02 16:01:46.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.851][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-02 16:01:46.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-02 16:01:46.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.855][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-02 16:01:46.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-02 16:01:46.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.859][ef$get] Asked field names are: name.
biodb.TRACE[2026-05-02 16:01:46.860][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-05-02 16:01:46.861][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.862][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.863][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-02 16:01:46.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-02 16:01:46.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.874][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-02 16:01:46.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-02 16:01:46.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.878][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-02 16:01:46.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-02 16:01:46.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.881][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-02 16:01:46.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-02 16:01:46.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.885][ef$get] Asked field names are: formula.
biodb.TRACE[2026-05-02 16:01:46.886][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-02 16:01:46.887][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.888][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.889][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-02 16:01:46.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-02 16:01:46.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.904][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:46.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:46.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.908][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:46.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:46.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.912][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:46.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:46.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.916][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:46.917][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:46.918][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.919][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.920][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:46.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:46.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.931][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:46.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:46.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.935][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:46.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:46.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.939][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:46.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:46.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.943][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:46.944][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:46.945][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.946][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.947][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:46.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:46.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.957][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-02 16:01:46.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-02 16:01:46.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.961][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-02 16:01:46.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-02 16:01:46.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.965][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-02 16:01:46.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-02 16:01:46.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.969][ef$get] Asked field names are: charge.
biodb.TRACE[2026-05-02 16:01:46.970][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-02 16:01:46.971][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.972][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.973][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-02 16:01:46.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-02 16:01:46.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.984][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-02 16:01:46.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-02 16:01:46.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.988][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-02 16:01:46.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-02 16:01:46.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.992][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-02 16:01:46.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-02 16:01:46.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:46.996][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-02 16:01:46.997][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-02 16:01:46.998][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:46.999][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.000][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-02 16:01:47.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-02 16:01:47.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.011][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:47.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:47.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.015][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:47.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:47.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.019][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:47.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:47.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.023][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:47.024][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:47.025][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.026][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.027][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:47.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:47.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.041][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-02 16:01:47.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-02 16:01:47.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.045][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-02 16:01:47.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-02 16:01:47.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.049][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-02 16:01:47.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-02 16:01:47.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.053][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-05-02 16:01:47.054][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-02 16:01:47.055][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.056][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.057][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-02 16:01:47.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-02 16:01:47.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.068][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-02 16:01:47.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-02 16:01:47.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.072][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-02 16:01:47.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-02 16:01:47.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.076][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-02 16:01:47.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-02 16:01:47.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.080][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-02 16:01:47.081][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-02 16:01:47.082][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.083][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.084][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-02 16:01:47.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-02 16:01:47.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.095][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-02 16:01:47.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-02 16:01:47.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.099][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-02 16:01:47.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-02 16:01:47.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.103][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-02 16:01:47.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-02 16:01:47.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.107][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-05-02 16:01:47.108][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-02 16:01:47.109][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.110][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.111][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-02 16:01:47.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-02 16:01:47.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.122][ef$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:47.123][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:47.124][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.125][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.129][ef$get] Asked field names are: charge.
biodb.TRACE[2026-05-02 16:01:47.130][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-02 16:01:47.131][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.132][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.136][ef$get] Asked field names are: formula.
biodb.TRACE[2026-05-02 16:01:47.137][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-02 16:01:47.138][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.139][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.143][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-05-02 16:01:47.144][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-02 16:01:47.145][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.145][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.149][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-02 16:01:47.150][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-02 16:01:47.151][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.152][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.156][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:47.157][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:47.158][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.159][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.163][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:47.168][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:47.169][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.170][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.174][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:47.175][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:47.176][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.177][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.181][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-02 16:01:47.182][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-02 16:01:47.183][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.184][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.188][ef$get] Asked field names are: name.
biodb.TRACE[2026-05-02 16:01:47.189][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-05-02 16:01:47.190][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.191][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.195][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-05-02 16:01:47.196][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-02 16:01:47.197][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.198][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.214][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-2528-content.xml".
biodb.DEBUG[2026-05-02 16:01:47.247][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-05-02 16:01:47.248][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-05-02 16:01:47.249][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-05-02 16:01:47.250][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-02 16:01:47.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-02 16:01:47.255][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:47.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:47.257][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:47.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-05-02 16:01:47.260][ef$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:47.261][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:47.262][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.263][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:47.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:47.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.287][ef$get] Asked field names are: charge.
biodb.TRACE[2026-05-02 16:01:47.288][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-02 16:01:47.289][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.290][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.291][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-02 16:01:47.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-02 16:01:47.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.295][ef$get] Asked field names are: formula.
biodb.TRACE[2026-05-02 16:01:47.296][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-02 16:01:47.297][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.298][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.300][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-02 16:01:47.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-02 16:01:47.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.304][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-05-02 16:01:47.305][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-02 16:01:47.306][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.307][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.308][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-02 16:01:47.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-02 16:01:47.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.312][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-02 16:01:47.313][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-02 16:01:47.314][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.315][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.316][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-02 16:01:47.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-02 16:01:47.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.320][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:47.321][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:47.322][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.323][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.324][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:47.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:47.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.328][ef$get] Asked field names are: mass.
biodb.TRACE[2026-05-02 16:01:47.329][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:47.330][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.331][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.332][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-05-02 16:01:47.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:47.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.336][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:47.337][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:47.338][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.339][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.340][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:47.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:47.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.344][ef$get] Asked field names are: name.
biodb.TRACE[2026-05-02 16:01:47.345][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-05-02 16:01:47.346][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.347][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.349][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-02 16:01:47.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-02 16:01:47.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.353][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-05-02 16:01:47.354][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-02 16:01:47.355][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.356][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.357][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-05-02 16:01:47.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-02 16:01:47.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.361][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-05-02 16:01:47.362][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-02 16:01:47.363][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.364][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.365][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-02 16:01:47.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-02 16:01:47.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.369][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:01:47.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:01:47.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.373][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:01:47.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:01:47.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.377][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:47.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:47.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.381][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:01:47.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:01:47.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:47.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:47.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:47.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:47.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.393][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:47.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:47.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.397][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:47.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:47.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:47.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:47.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:47.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:47.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-05-02 16:01:47.408][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 2528.
biodb.TRACE[2026-05-02 16:01:47.432][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-02 16:01:47.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-02 16:01:47.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.436][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-02 16:01:47.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-02 16:01:47.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.440][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-02 16:01:47.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-02 16:01:47.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.444][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-02 16:01:47.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-02 16:01:47.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.448][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:47.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:47.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.451][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:47.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:47.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.455][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-05-02 16:01:47.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-05-02 16:01:47.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.459][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-05-02 16:01:47.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-05-02 16:01:47.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.463][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-05-02 16:01:47.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-05-02 16:01:47.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.467][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-05-02 16:01:47.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-05-02 16:01:47.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:47.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:47.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.479][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:01:47.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:01:47.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:47.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:47.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.491][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:47.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:47.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:47.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:47.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:47.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:47.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:47.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:47.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.508][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:47.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:47.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.512][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:01:47.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:01:47.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.516][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:01:47.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:01:47.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.520][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:01:47.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:01:47.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.538][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:47.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:47.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.542][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:47.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:47.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:47.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:47.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.550][ef$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:47.551][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:47.552][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.553][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.557][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:47.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:47.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.568][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:01:47.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:01:47.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.572][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:01:47.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:01:47.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.576][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:01:47.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:01:47.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.580][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:01:47.581][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:01:47.582][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.583][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.584][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:01:47.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:01:47.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.595][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-02 16:01:47.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-02 16:01:47.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.599][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-02 16:01:47.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-02 16:01:47.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.602][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-02 16:01:47.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-02 16:01:47.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.606][ef$get] Asked field names are: name.
biodb.TRACE[2026-05-02 16:01:47.607][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-05-02 16:01:47.608][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.609][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.610][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-02 16:01:47.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-02 16:01:47.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.621][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-02 16:01:47.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-02 16:01:47.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.625][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-02 16:01:47.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-02 16:01:47.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.629][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-02 16:01:47.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-02 16:01:47.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.633][ef$get] Asked field names are: formula.
biodb.TRACE[2026-05-02 16:01:47.634][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-02 16:01:47.635][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.636][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.637][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-02 16:01:47.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-02 16:01:47.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.648][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-05-02 16:01:47.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:47.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.652][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:47.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:47.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.655][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:47.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:47.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.659][ef$get] Asked field names are: mass.
biodb.TRACE[2026-05-02 16:01:47.661][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:47.661][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.662][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.663][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-05-02 16:01:47.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:47.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.674][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:47.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:47.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.678][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:47.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:47.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.682][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:47.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:47.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.686][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:47.687][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:47.688][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.693][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.694][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:47.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:47.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.704][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:47.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:47.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.708][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:47.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:47.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.712][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:47.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:47.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.716][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:47.717][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:47.718][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.719][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.720][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:47.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:47.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.731][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-02 16:01:47.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-02 16:01:47.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.735][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-02 16:01:47.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-02 16:01:47.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.739][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-02 16:01:47.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-02 16:01:47.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.742][ef$get] Asked field names are: charge.
biodb.TRACE[2026-05-02 16:01:47.744][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-02 16:01:47.744][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.745][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.746][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-02 16:01:47.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-02 16:01:47.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.757][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-02 16:01:47.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-02 16:01:47.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.761][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-02 16:01:47.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-02 16:01:47.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.765][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-02 16:01:47.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-02 16:01:47.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.769][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-02 16:01:47.770][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-02 16:01:47.771][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.772][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.773][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-02 16:01:47.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-02 16:01:47.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.783][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:47.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:47.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.787][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:47.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:47.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.791][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:47.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:47.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.795][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:47.796][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:47.797][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.798][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.799][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:47.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:47.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.810][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-02 16:01:47.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-02 16:01:47.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.814][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-02 16:01:47.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-02 16:01:47.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.817][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-02 16:01:47.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-02 16:01:47.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.821][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-05-02 16:01:47.822][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-02 16:01:47.827][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.828][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.829][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-02 16:01:47.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-02 16:01:47.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.840][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-02 16:01:47.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-02 16:01:47.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.844][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-02 16:01:47.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-02 16:01:47.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.848][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-02 16:01:47.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-02 16:01:47.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.852][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-02 16:01:47.853][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-02 16:01:47.854][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.855][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.856][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-02 16:01:47.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-02 16:01:47.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.866][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-02 16:01:47.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-02 16:01:47.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.870][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-02 16:01:47.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-02 16:01:47.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.874][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-02 16:01:47.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-02 16:01:47.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.878][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-05-02 16:01:47.879][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-02 16:01:47.880][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.881][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.882][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-02 16:01:47.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-02 16:01:47.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.893][ef$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:47.894][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:47.895][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.896][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.900][ef$get] Asked field names are: charge.
biodb.TRACE[2026-05-02 16:01:47.901][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-02 16:01:47.902][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.903][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.907][ef$get] Asked field names are: formula.
biodb.TRACE[2026-05-02 16:01:47.908][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-02 16:01:47.909][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.910][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.914][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-05-02 16:01:47.915][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-02 16:01:47.916][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.917][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.920][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-02 16:01:47.922][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-02 16:01:47.922][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.923][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.927][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:47.928][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:47.929][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.930][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.934][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:47.935][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:47.936][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.937][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.941][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:47.942][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:47.943][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.944][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.948][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-02 16:01:47.949][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-02 16:01:47.950][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.951][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.955][ef$get] Asked field names are: name.
biodb.TRACE[2026-05-02 16:01:47.956][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-05-02 16:01:47.961][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.962][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.966][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-05-02 16:01:47.967][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-02 16:01:47.968][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.969][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.973][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-7799-content.xml".
biodb.DEBUG[2026-05-02 16:01:47.974][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-05-02 16:01:47.975][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-05-02 16:01:47.977][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-05-02 16:01:47.978][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-02 16:01:47.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-02 16:01:47.983][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:47.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:47.984][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:47.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-05-02 16:01:47.987][ef$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:47.988][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:47.989][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.990][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:47.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:47.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:47.995][ef$get] Asked field names are: charge.
biodb.TRACE[2026-05-02 16:01:47.997][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-02 16:01:47.997][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:47.998][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.000][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-02 16:01:48.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-02 16:01:48.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.004][ef$get] Asked field names are: formula.
biodb.TRACE[2026-05-02 16:01:48.005][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-02 16:01:48.006][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.007][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.008][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-02 16:01:48.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-02 16:01:48.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.012][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-05-02 16:01:48.013][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-02 16:01:48.014][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.015][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.016][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-02 16:01:48.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-02 16:01:48.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.020][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-02 16:01:48.021][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-02 16:01:48.022][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.023][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.024][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-02 16:01:48.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-02 16:01:48.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.028][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:48.029][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:48.030][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.031][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.032][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:48.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:48.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.036][ef$get] Asked field names are: mass.
biodb.TRACE[2026-05-02 16:01:48.037][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:48.038][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.039][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.040][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-05-02 16:01:48.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:48.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.044][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:48.045][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:48.046][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.047][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.048][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:48.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:48.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.052][ef$get] Asked field names are: name.
biodb.TRACE[2026-05-02 16:01:48.053][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-05-02 16:01:48.054][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.055][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.057][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-02 16:01:48.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-02 16:01:48.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.061][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-05-02 16:01:48.062][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-02 16:01:48.063][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.064][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.065][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-05-02 16:01:48.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-02 16:01:48.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.069][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-05-02 16:01:48.070][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-02 16:01:48.071][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.072][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.073][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-02 16:01:48.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-02 16:01:48.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.077][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:01:48.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:01:48.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.081][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:01:48.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:01:48.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.085][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:48.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:48.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.089][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:01:48.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:01:48.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:48.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:48.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:48.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:48.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.104][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:48.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:48.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.108][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:48.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:48.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.112][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:48.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:48.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.116][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:48.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:48.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-05-02 16:01:48.120][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 7799.
biodb.TRACE[2026-05-02 16:01:48.122][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-02 16:01:48.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-02 16:01:48.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.126][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-02 16:01:48.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-02 16:01:48.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.130][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-02 16:01:48.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-02 16:01:48.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.134][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-02 16:01:48.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-02 16:01:48.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.138][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:48.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:48.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.142][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:48.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:48.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.146][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-05-02 16:01:48.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-05-02 16:01:48.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.150][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-05-02 16:01:48.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-05-02 16:01:48.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.154][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-05-02 16:01:48.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-05-02 16:01:48.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.158][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-05-02 16:01:48.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-05-02 16:01:48.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:48.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:48.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.170][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:01:48.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:01:48.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:48.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:48.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.182][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:48.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:48.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.186][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:48.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:48.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.191][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:48.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:48.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.195][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:48.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:48.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.199][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:48.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:48.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.203][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:01:48.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:01:48.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.207][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:01:48.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:01:48.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.211][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:01:48.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:01:48.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:48.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:48.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.224][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:48.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:48.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:48.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:48.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.232][ef$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:48.233][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:48.234][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.235][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.236][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:48.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:48.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.250][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-02 16:01:48.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-02 16:01:48.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.254][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-02 16:01:48.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-02 16:01:48.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.258][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-02 16:01:48.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-02 16:01:48.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.262][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-05-02 16:01:48.264][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-02 16:01:48.264][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.265][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.266][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-05-02 16:01:48.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-02 16:01:48.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.277][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-02 16:01:48.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-02 16:01:48.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.281][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-02 16:01:48.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-02 16:01:48.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.285][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-02 16:01:48.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-02 16:01:48.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.289][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-05-02 16:01:48.290][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-02 16:01:48.291][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.292][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.293][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-05-02 16:01:48.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-02 16:01:48.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.304][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-02 16:01:48.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-02 16:01:48.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.308][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-02 16:01:48.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-02 16:01:48.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.312][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-02 16:01:48.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-02 16:01:48.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.316][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-02 16:01:48.317][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-02 16:01:48.318][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.319][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.320][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-02 16:01:48.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-02 16:01:48.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.331][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:48.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:48.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.334][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:48.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:48.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.338][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:48.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:48.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.342][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:48.343][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:48.344][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.345][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.346][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:48.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:48.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.357][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:48.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:48.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.361][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:48.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:48.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.365][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:48.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:48.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.369][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:48.370][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:48.371][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.372][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.377][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:48.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:48.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.388][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:48.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:48.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.392][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:48.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:48.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.396][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:48.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:48.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.400][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:48.401][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:48.402][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.403][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.404][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:48.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:48.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.414][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-02 16:01:48.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-02 16:01:48.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.418][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-02 16:01:48.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-02 16:01:48.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.422][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-02 16:01:48.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-02 16:01:48.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.426][ef$get] Asked field names are: charge.
biodb.TRACE[2026-05-02 16:01:48.427][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-02 16:01:48.428][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.429][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.430][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-05-02 16:01:48.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-02 16:01:48.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.441][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-02 16:01:48.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-02 16:01:48.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.445][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-02 16:01:48.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-02 16:01:48.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.449][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-02 16:01:48.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-02 16:01:48.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.453][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-02 16:01:48.454][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-02 16:01:48.455][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.456][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.457][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-02 16:01:48.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-02 16:01:48.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.468][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-02 16:01:48.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-02 16:01:48.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.472][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-02 16:01:48.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-02 16:01:48.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.476][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-02 16:01:48.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-02 16:01:48.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.480][ef$get] Asked field names are: name.
biodb.TRACE[2026-05-02 16:01:48.481][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-05-02 16:01:48.482][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.483][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.484][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-05-02 16:01:48.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-05-02 16:01:48.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.495][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-02 16:01:48.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-02 16:01:48.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.499][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-02 16:01:48.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-02 16:01:48.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.503][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-02 16:01:48.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-02 16:01:48.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.507][ef$get] Asked field names are: formula.
biodb.TRACE[2026-05-02 16:01:48.508][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-02 16:01:48.513][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.514][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.515][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-05-02 16:01:48.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-02 16:01:48.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.527][ef$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:01:48.528][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:01:48.529][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.530][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.534][ef$get] Asked field names are: charge.
biodb.TRACE[2026-05-02 16:01:48.535][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-05-02 16:01:48.536][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.537][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.541][ef$get] Asked field names are: formula.
biodb.TRACE[2026-05-02 16:01:48.542][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-05-02 16:01:48.543][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.544][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.548][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-05-02 16:01:48.549][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-05-02 16:01:48.550][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.551][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.555][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-05-02 16:01:48.556][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-05-02 16:01:48.557][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.558][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.562][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:48.563][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-05-02 16:01:48.564][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.565][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.569][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:48.570][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-05-02 16:01:48.571][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.572][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.576][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:48.577][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:01:48.578][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.579][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.583][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-05-02 16:01:48.584][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-05-02 16:01:48.585][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.586][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.590][ef$get] Asked field names are: name.
biodb.TRACE[2026-05-02 16:01:48.591][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-05-02 16:01:48.592][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.593][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:01:48.597][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-05-02 16:01:48.598][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-05-02 16:01:48.599][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:01:48.599][ef$get] fields variable is a list.
biodb.INFO [2026-05-02 16:01:48.606][biodb::testThat]
biodb.INFO [2026-05-02 16:01:48.607][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2026-05-02 16:01:48.608][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-02 16:01:48.609][biodb::testThat]
biodb.DEBUG[2026-05-02 16:01:48.611][private$loadEntries] Creating entries from ids [3]: "15440, 2528, 7799".
biodb.DEBUG[2026-05-02 16:01:48.616][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2026-05-02 16:01:48.620][cch$loadContents] Load 3 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2026-05-02 16:01:48.621][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2026-05-02 16:01:48.622][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2026-05-02 16:01:48.623][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2026-05-02 16:01:48.624][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2026-05-02 16:01:48.630][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-05-02 16:01:48.630][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-02 16:01:48.631][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-02 16:01:48.635][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:48.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:48.637][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:48.638][FUN] Functions in observer 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[2026-05-02 16:01:48.640][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
fscache.INFO [2026-05-02 16:01:48.701][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2026-05-02 16:01:48.702][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-02 16:01:48.703][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-02 16:01:48.704][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-05-02 16:01:51.288][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[2026-05-02 16:01:51.291][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-02 16:01:51.293][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[2026-05-02 16:01:51.296][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 [2026-05-02 16:01:52.076][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-05-02 16:01:52.079][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-02 16:01:52.081][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-02 16:01:52.084][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-05-02 16:01:52.414][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[2026-05-02 16:01:52.416][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-02 16:01:52.419][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[2026-05-02 16:01:52.421][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 [2026-05-02 16:01:52.867][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-05-02 16:01:52.869][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-02 16:01:52.872][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-02 16:01:52.875][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-05-02 16:01:53.205][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[2026-05-02 16:01:53.207][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-02 16:01:53.210][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[2026-05-02 16:01:53.212][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 [2026-05-02 16:01:53.657][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-05-02 16:01:53.660][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-02 16:01:53.662][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-02 16:01:53.665][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-05-02 16:01:54.000][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[2026-05-02 16:01:54.002][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-02 16:01:54.004][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[2026-05-02 16:01:54.007][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 [2026-05-02 16:01:54.451][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-05-02 16:01:54.454][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-02 16:01:54.456][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-02 16:01:54.459][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-05-02 16:01:54.789][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[2026-05-02 16:01:54.792][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-02 16:01:54.794][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[2026-05-02 16:01:54.797][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 [2026-05-02 16:01:55.565][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-05-02 16:01:55.568][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-02 16:01:55.570][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-02 16:01:55.573][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-05-02 16:01:55.902][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[2026-05-02 16:01:55.905][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-02 16:01:55.907][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[2026-05-02 16:01:55.910][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 [2026-05-02 16:01:56.355][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-05-02 16:01:56.358][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-02 16:01:56.360][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-02 16:01:56.363][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-05-02 16:01:56.692][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[2026-05-02 16:01:56.693][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-02 16:01:56.695][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[2026-05-02 16:01:56.696][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 [2026-05-02 16:01:57.227][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-05-02 16:01:57.242][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-02 16:01:57.244][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-02 16:01:57.245][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-05-02 16:01:57.571][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[2026-05-02 16:01:57.572][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-02 16:01:57.574][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[2026-05-02 16:01:57.575][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 [2026-05-02 16:01:58.113][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-05-02 16:01:58.116][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-02 16:01:58.118][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-02 16:01:58.131][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-05-02 16:01:58.466][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[2026-05-02 16:01:58.469][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-02 16:01:58.472][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[2026-05-02 16:01:58.475][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 [2026-05-02 16:01:58.921][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-05-02 16:01:58.924][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-02 16:01:58.927][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-02 16:01:58.931][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-05-02 16:01:59.260][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[2026-05-02 16:01:59.262][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-02 16:01:59.265][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[2026-05-02 16:01:59.268][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 [2026-05-02 16:01:59.714][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
biodb.DEBUG[2026-05-02 16:01:59.719][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-05-02 16:01:59.722][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-02 16:01:59.724][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-02 16:01:59.739][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:01:59.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:01:59.744][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:01:59.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2026-05-02 16:01:59.781][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
fscache.INFO [2026-05-02 16:01:59.817][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2026-05-02 16:01:59.833][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-02 16:01:59.834][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-02 16:01:59.836][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-05-02 16:02:00.163][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-05-02 16:02:00.165][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-02 16:02:00.167][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-02 16:02:00.170][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-05-02 16:02:00.617][private$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[2026-05-02 16:02:00.620][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-02 16:02:00.622][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-02 16:02:00.626][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-05-02 16:02:00.955][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-05-02 16:02:00.980][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-02 16:02:00.998][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-02 16:02:01.001][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-05-02 16:02:01.447][private$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[2026-05-02 16:02:01.449][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-02 16:02:01.452][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-02 16:02:01.456][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-05-02 16:02:01.787][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-05-02 16:02:01.789][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-02 16:02:01.792][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-02 16:02:01.794][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-05-02 16:02:02.239][private$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[2026-05-02 16:02:02.242][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-02 16:02:02.245][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-02 16:02:02.249][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-05-02 16:02:02.586][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-05-02 16:02:02.589][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-02 16:02:02.592][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-02 16:02:02.594][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-05-02 16:02:03.132][private$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[2026-05-02 16:02:03.135][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-02 16:02:03.137][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-02 16:02:03.141][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-05-02 16:02:03.473][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-05-02 16:02:03.475][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-02 16:02:03.478][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-02 16:02:03.480][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-05-02 16:02:03.925][private$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[2026-05-02 16:02:03.927][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-02 16:02:03.930][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-02 16:02:03.933][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-05-02 16:02:04.268][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-05-02 16:02:04.270][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-02 16:02:04.272][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-02 16:02:04.275][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-05-02 16:02:04.721][private$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[2026-05-02 16:02:04.723][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-02 16:02:04.726][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-02 16:02:04.729][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-05-02 16:02:05.058][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-05-02 16:02:05.061][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-02 16:02:05.063][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-02 16:02:05.066][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-05-02 16:02:05.511][private$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[2026-05-02 16:02:05.513][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-02 16:02:05.516][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-02 16:02:05.519][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-05-02 16:02:05.849][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-05-02 16:02:05.851][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-02 16:02:05.854][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-02 16:02:05.856][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-05-02 16:02:06.301][private$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[2026-05-02 16:02:06.303][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-02 16:02:06.306][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-02 16:02:06.309][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-05-02 16:02:06.638][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-05-02 16:02:06.640][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-02 16:02:06.643][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-02 16:02:06.645][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-05-02 16:02:07.094][private$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[2026-05-02 16:02:07.097][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-02 16:02:07.099][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-02 16:02:07.103][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-05-02 16:02:07.434][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-05-02 16:02:07.436][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-02 16:02:07.439][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-05-02 16:02:07.441][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-05-02 16:02:07.885][private$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[2026-05-02 16:02:07.888][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-05-02 16:02:07.890][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-02 16:02:07.892][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-02 16:02:07.903][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:02:07.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:02:07.907][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:02:07.910][FUN] Functions in observer 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[2026-05-02 16:02:07.919][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
fscache.INFO [2026-05-02 16:02:07.929][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2026-05-02 16:02:07.931][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-02 16:02:07.933][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-02 16:02:07.936][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-05-02 16:02:08.266][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[2026-05-02 16:02:08.269][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-02 16:02:08.272][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[2026-05-02 16:02:08.275][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 [2026-05-02 16:02:08.719][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-05-02 16:02:08.722][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-02 16:02:08.725][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-02 16:02:08.728][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-05-02 16:02:09.059][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[2026-05-02 16:02:09.062][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-02 16:02:09.065][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[2026-05-02 16:02:09.068][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 [2026-05-02 16:02:09.513][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-05-02 16:02:09.516][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-02 16:02:09.518][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-02 16:02:09.522][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-05-02 16:02:09.860][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[2026-05-02 16:02:09.863][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-02 16:02:09.865][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[2026-05-02 16:02:09.867][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 [2026-05-02 16:02:10.312][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-05-02 16:02:10.315][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-02 16:02:10.317][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-02 16:02:10.321][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-05-02 16:02:10.655][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[2026-05-02 16:02:10.657][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-02 16:02:10.660][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[2026-05-02 16:02:10.663][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 [2026-05-02 16:02:11.110][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-05-02 16:02:11.113][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-02 16:02:11.116][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-02 16:02:11.119][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-05-02 16:02:11.451][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[2026-05-02 16:02:11.453][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-02 16:02:11.456][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[2026-05-02 16:02:11.459][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 [2026-05-02 16:02:11.905][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-05-02 16:02:11.970][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-02 16:02:11.972][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-02 16:02:11.974][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-05-02 16:02:12.302][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[2026-05-02 16:02:12.304][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-02 16:02:12.307][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[2026-05-02 16:02:12.310][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 [2026-05-02 16:02:12.754][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-05-02 16:02:12.757][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-02 16:02:12.760][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-02 16:02:12.763][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-05-02 16:02:13.096][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[2026-05-02 16:02:13.099][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-02 16:02:13.101][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[2026-05-02 16:02:13.104][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 [2026-05-02 16:02:13.551][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-05-02 16:02:13.554][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-02 16:02:13.556][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-02 16:02:13.560][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-05-02 16:02:13.896][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[2026-05-02 16:02:13.898][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-02 16:02:13.901][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[2026-05-02 16:02:13.903][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 [2026-05-02 16:02:14.350][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-05-02 16:02:14.353][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-02 16:02:14.356][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-02 16:02:14.359][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-05-02 16:02:14.688][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[2026-05-02 16:02:14.690][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-02 16:02:14.692][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[2026-05-02 16:02:14.694][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 [2026-05-02 16:02:15.140][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-05-02 16:02:15.143][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-05-02 16:02:15.145][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-05-02 16:02:15.149][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-05-02 16:02:15.478][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[2026-05-02 16:02:15.480][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-05-02 16:02:15.483][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[2026-05-02 16:02:15.485][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 [2026-05-02 16:02:15.930][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
fscache.INFO [2026-05-02 16:02:15.934][cch$saveContents] Save 3 contents to /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2026-05-02 16:02:15.937][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2026-05-02 16:02:15.940][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2026-05-02 16:02:15.943][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2026-05-02 16:02:15.947][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-05-02 16:02:15.950][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-02 16:02:15.952][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-02 16:02:15.963][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:02:15.966][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:02:15.968][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:02:15.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-05-02 16:02:15.974][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:02:15.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:02:15.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:02:15.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:02:15.982][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:02:15.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:02:15.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:02:15.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:02:15.989][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:02:15.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:02:15.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:02:15.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-05-02 16:02:15.995][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-05-02 16:02:15.997][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-02 16:02:15.998][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-02 16:02:16.004][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:02:16.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:02:16.006][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:02:16.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-05-02 16:02:16.009][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:02:16.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:02:16.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:02:16.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:02:16.014][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:02:16.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:02:16.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:02:16.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:02:16.018][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:02:16.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:02:16.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:02:16.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-05-02 16:02:16.022][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-05-02 16:02:16.023][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-02 16:02:16.024][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-02 16:02:16.028][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:02:16.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:02:16.029][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:02:16.030][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-05-02 16:02:16.032][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:02:16.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:02:16.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:02:16.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:02:16.036][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-05-02 16:02:16.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-05-02 16:02:16.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:02:16.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:02:16.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:02:16.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:02:16.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:02:16.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:02:16.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:02:16.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:02:16.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:02:16.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:02:16.047][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:02:16.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:02:16.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:02:16.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:02:16.051][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:02:16.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:02:16.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:02:16.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:02:16.065][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:02:16.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:02:16.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:02:16.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:02:16.070][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:02:16.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:02:16.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:02:16.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:02:16.074][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:02:16.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:02:16.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:02:16.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:02:16.078][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:02:16.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:02:16.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:02:16.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:02:16.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:02:16.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:02:16.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:02:16.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:02:16.086][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:02:16.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:02:16.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:02:16.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:02:16.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:02:16.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:02:16.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:02:16.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:02:16.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:02:16.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:02:16.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:02:16.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:02:16.097][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:02:16.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:02:16.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:02:16.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:02:16.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:02:16.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:02:16.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:02:16.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:02:16.105][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:02:16.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:02:16.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:02:16.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:02:16.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-05-02 16:02:16.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-05-02 16:02:16.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:02:16.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-05-02 16:02:16.113][self$createEntryFromContent] Accession numbers: NA, NA, NA.
biodb.DEBUG[2026-05-02 16:02:16.114][self$createEntryFromContent] Found 3 entry/ies without an accession number. Set it/them to NULL.
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-05-02 16:02:16.244][biodb::testThat]
biodb.INFO [2026-05-02 16:02:16.245][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2026-05-02 16:02:16.246][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-02 16:02:16.247][biodb::testThat]
biodb.TRACE[2026-05-02 16:02:16.250][ef$get] Asked field names are: name.
biodb.TRACE[2026-05-02 16:02:16.251][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-05-02 16:02:16.252][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:02:16.253][ef$get] fields variable is a list.
biodb.DEBUG[2026-05-02 16:02:16.254][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 [2026-05-02 16:02:16.685][biodb::testThat]
biodb.INFO [2026-05-02 16:02:16.686][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2026-05-02 16:02:16.687][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-02 16:02:16.688][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-05-02 16:02:16.776][biodb::testThat]
biodb.INFO [2026-05-02 16:02:16.777][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2026-05-02 16:02:16.778][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-02 16:02:16.779][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-05-02 16:02:16.885][biodb::testThat]
biodb.INFO [2026-05-02 16:02:16.886][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2026-05-02 16:02:16.887][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-02 16:02:16.888][biodb::testThat]
biodb.INFO [2026-05-02 16:02:16.897][biodb::testThat]
biodb.INFO [2026-05-02 16:02:16.898][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2026-05-02 16:02:16.899][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-02 16:02:16.900][biodb::testThat]
biodb.INFO [2026-05-02 16:02:16.908][biodb::testThat]
biodb.INFO [2026-05-02 16:02:16.909][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2026-05-02 16:02:16.910][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-02 16:02:16.911][biodb::testThat]
biodb.DEBUG[2026-05-02 16:02:16.915][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2026-05-02 16:02:17.413][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2026-05-02 16:02:17.828][biodb::testThat]
biodb.INFO [2026-05-02 16:02:17.830][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2026-05-02 16:02:17.833][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-02 16:02:17.836][biodb::testThat]
biodb.TRACE[2026-05-02 16:02:17.872][ef$get] Asked field names are: name.
biodb.TRACE[2026-05-02 16:02:17.874][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-05-02 16:02:17.875][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:02:17.877][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:02:17.878][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:02:17.879][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:02:17.881][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:02:17.882][ef$get] fields variable is a list.
biodb.INFO [2026-05-02 16:02:17.884][biodb::testThat]
biodb.INFO [2026-05-02 16:02:17.885][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2026-05-02 16:02:17.886][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-02 16:02:17.887][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-05-02 16:02:17.992][biodb::testThat]
biodb.INFO [2026-05-02 16:02:17.993][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2026-05-02 16:02:17.994][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-02 16:02:17.995][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-05-02 16:02:18.034][biodb::testThat]
biodb.INFO [2026-05-02 16:02:18.035][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2026-05-02 16:02:18.036][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-02 16:02:18.037][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-05-02 16:02:18.076][biodb::testThat]
biodb.INFO [2026-05-02 16:02:18.077][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2026-05-02 16:02:18.078][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-02 16:02:18.079][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.TRACE[2026-05-02 16:02:18.119][ef$get] Asked field names are: name.
biodb.TRACE[2026-05-02 16:02:18.121][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-05-02 16:02:18.121][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:02:18.122][ef$get] fields variable is a list.
biodb.TRACE[2026-05-02 16:02:18.123][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:02:18.124][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-05-02 16:02:18.125][ef$get] 1 fields were returned.
biodb.TRACE[2026-05-02 16:02:18.126][ef$get] fields variable is a list.
biodb.INFO [2026-05-02 16:02:18.128][biodb::testThat]
biodb.INFO [2026-05-02 16:02:18.129][biodb::testThat] Running test function  test.annotateMzValues_real_values  (" annotateMzValues() works correctly with real values. ").
biodb.INFO [2026-05-02 16:02:18.130][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-02 16:02:18.131][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-05-02 16:02:18.171][biodb::testThat]
biodb.INFO [2026-05-02 16:02:18.171][biodb::testThat] Running test function  test_annotateMzValues_additional_fields  (" Additional fields are accepted in annotateMzValues() ").
biodb.INFO [2026-05-02 16:02:18.172][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-05-02 16:02:18.173][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-05-02 16:02:18.213][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2026-05-02 16:02:18.214][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2026-05-02 16:02:18.215][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2026-05-02 16:02:18.216][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-05-02 16:02:18.217][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-05-02 16:02:18.218][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2026-05-02 16:02:18.219][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-05-02 16:02:18.220][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2026-05-02 16:02:18.221][FUN] Functions in observer 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: 2026-05-02 20:01:06 UTC
* using options ‘--no-codoc --no-examples --no-manual --ignore-vignettes --no-stop-on-test-error’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.18.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking whether startup messages can be suppressed ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... SKIPPED
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... SKIPPED
* checking examples ... SKIPPED
* checking for unstated dependencies in ‘longtests’ ... OK
* checking tests in ‘longtests’ ...
  Running ‘testthat.R’
 ERROR
Running the tests in ‘longtests/testthat.R’ failed.
Last 13 lines of output:
   3.   └─base::vapply(entries, function(e) e$hasField(mf), FUN.VALUE = TRUE)
   4.     └─biodb (local) FUN(X[[i]], ...)
  ── Error ('test_long_100_generic.R:17:1'): Additional fields are accepted in annotateMzValues() ──
  Error in `e$hasField(mf)`: attempt to apply non-function
  Backtrace:
      ▆
   1. ├─base::do.call(fct, params)
   2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
   3.   └─base::vapply(entries, function(e) e$hasField(mf), FUN.VALUE = TRUE)
   4.     └─biodb (local) FUN(X[[i]], ...)
  
  [ FAIL 14 | WARN 0 | SKIP 1 | PASS 220 ]
  Error:
  ! Test failures.
  Execution halted
* DONE

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

Installation output

biodbChebi.Rcheck/00install.out

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