Back to Long Tests report for BioC 3.23

This page was generated on 2026-02-28 23:55 -0500 (Sat, 28 Feb 2026).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_64R Under development (unstable) (2026-01-15 r89304) -- "Unsuffered Consequences" 4877
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 1.17.1  (landing page)
Pierrick Roger
Snapshot Date: 2026-02-28 09:55 -0500 (Sat, 28 Feb 2026)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: devel
git_last_commit: 00b5d36
git_last_commit_date: 2026-02-03 10:53:27 -0500 (Tue, 03 Feb 2026)
nebbiolo1Linux (Ubuntu 24.04.3 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: 1.17.1
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_1.17.1.tar.gz
StartedAt: 2026-02-28 16:01:05 -0500 (Sat, 28 Feb 2026)
EndedAt: 2026-02-28 16:02:25 -0500 (Sat, 28 Feb 2026)
EllapsedTime: 80.0 seconds
RetCode: 1
Status:   ERROR  
CheckDir: biodbChebi.Rcheck
Warnings: NA

Tests output

biodbChebi.Rcheck/tests/testthat.Rout.fail


R Under development (unstable) (2026-01-15 r89304) -- "Unsuffered Consequences"
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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 [2026-02-28 16:01:44.535][biodb::testContext]
biodb.INFO [2026-02-28 16:01:44.538][biodb::testContext] ********************************************************************************
biodb.INFO [2026-02-28 16:01:44.539][biodb::testContext] Test context - Generic long tests
biodb.INFO [2026-02-28 16:01:44.539][biodb::testContext] ********************************************************************************
biodb.INFO [2026-02-28 16:01:44.540][biodb::testContext]
biodb.INFO [2026-02-28 16:01:44.547][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.19.0.
biodb.DEBUG[2026-02-28 16:01:44.549][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.23-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2026-02-28 16:01:44.555][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-02-28 16:01:44.556][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2026-02-28 16:01:44.557][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2026-02-28 16:01:44.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:44.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:44.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:44.561][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2026-02-28 16:01:44.578][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2026-02-28 16:01:44.579][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:44.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:44.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:44.582][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2026-02-28 16:01:44.583][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2026-02-28 16:01:44.584][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:44.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:44.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:44.587][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2026-02-28 16:01:44.588][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2026-02-28 16:01:44.589][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2026-02-28 16:01:44.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:44.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:44.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:44.592][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2026-02-28 16:01:44.593][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2026-02-28 16:01:44.594][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2026-02-28 16:01:44.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:44.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:44.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:44.598][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2026-02-28 16:01:44.599][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2026-02-28 16:01:44.600][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:44.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:44.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:44.610][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2026-02-28 16:01:44.611][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2026-02-28 16:01:44.612][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2026-02-28 16:01:44.613][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:44.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:44.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:44.616][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2026-02-28 16:01:44.617][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2026-02-28 16:01:44.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:44.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:44.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:44.620][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2026-02-28 16:01:44.621][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2026-02-28 16:01:44.622][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2026-02-28 16:01:44.623][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:44.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:44.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:44.626][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2026-02-28 16:01:44.627][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2026-02-28 16:01:44.628][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2026-02-28 16:01:44.629][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2026-02-28 16:01:44.630][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2026-02-28 16:01:44.631][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2026-02-28 16:01:44.631][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:44.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:44.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:44.634][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2026-02-28 16:01:44.635][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2026-02-28 16:01:44.636][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:44.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:44.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:44.639][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2026-02-28 16:01:44.640][self$set] Set key entries.sep to "|".
biodb.DEBUG[2026-02-28 16:01:44.640][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:44.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:44.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:44.643][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2026-02-28 16:01:44.644][self$set] Set key offline to FALSE.
biodb.DEBUG[2026-02-28 16:01:44.645][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:44.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:44.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:44.648][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2026-02-28 16:01:44.648][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2026-02-28 16:01:44.649][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2026-02-28 16:01:44.650][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:44.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:44.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:44.653][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2026-02-28 16:01:44.654][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2026-02-28 16:01:44.658][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2026-02-28 16:01:44.659][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:44.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:44.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:44.662][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2026-02-28 16:01:44.663][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2026-02-28 16:01:44.664][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2026-02-28 16:01:44.665][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:44.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:44.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:44.670][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2026-02-28 16:01:44.700][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-02-28 16:01:44.715][self$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[2026-02-28 16:01:44.716][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:44.717][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-02-28 16:01:44.718][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:44.719][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-02-28 16:01:44.720][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-02-28 16:01:44.721][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-02-28 16:01:44.722][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2026-02-28 16:01:44.723][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-02-28 16:01:44.724][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:44.725][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2026-02-28 16:01:44.726][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-02-28 16:01:44.727][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-02-28 16:01:44.728][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:44.729][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-02-28 16:01:44.729][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-02-28 16:01:44.729][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-02-28 16:01:44.729][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2026-02-28 16:01:44.729][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2026-02-28 16:01:44.730][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-02-28 16:01:44.731][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-02-28 16:01:44.732][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-02-28 16:01:44.733][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-02-28 16:01:44.733][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-02-28 16:01:44.734][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-02-28 16:01:44.735][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-02-28 16:01:44.736][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-02-28 16:01:44.737][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-02-28 16:01:44.738][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-02-28 16:01:44.739][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-02-28 16:01:44.740][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-02-28 16:01:44.741][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2026-02-28 16:01:44.743][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-02-28 16:01:44.744][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2026-02-28 16:01:44.745][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:44.746][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-02-28 16:01:44.747][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:44.748][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-02-28 16:01:44.748][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-02-28 16:01:44.749][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-02-28 16:01:44.750][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2026-02-28 16:01:44.751][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-02-28 16:01:44.752][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:44.753][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2026-02-28 16:01:44.754][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-02-28 16:01:44.755][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-02-28 16:01:44.756][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:44.757][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-02-28 16:01:44.757][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-02-28 16:01:44.757][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-02-28 16:01:44.757][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2026-02-28 16:01:44.757][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2026-02-28 16:01:44.758][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-02-28 16:01:44.759][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-02-28 16:01:44.760][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-02-28 16:01:44.761][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-02-28 16:01:44.762][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-02-28 16:01:44.763][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-02-28 16:01:44.764][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-02-28 16:01:44.765][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-02-28 16:01:44.765][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-02-28 16:01:44.766][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-02-28 16:01:44.767][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-02-28 16:01:44.768][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-02-28 16:01:44.769][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2026-02-28 16:01:44.771][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:44.777][self$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[2026-02-28 16:01:44.778][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:44.778][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-02-28 16:01:44.779][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:44.780][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-02-28 16:01:44.781][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-02-28 16:01:44.782][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-02-28 16:01:44.783][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2026-02-28 16:01:44.784][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-02-28 16:01:44.785][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2026-02-28 16:01:44.786][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2026-02-28 16:01:44.787][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-02-28 16:01:44.788][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-02-28 16:01:44.789][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:44.790][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2026-02-28 16:01:44.791][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-02-28 16:01:44.792][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-02-28 16:01:44.793][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-02-28 16:01:44.794][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-02-28 16:01:44.795][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-02-28 16:01:44.796][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-02-28 16:01:44.796][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-02-28 16:01:44.797][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-02-28 16:01:44.798][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-02-28 16:01:44.799][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-02-28 16:01:44.800][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-02-28 16:01:44.801][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-02-28 16:01:44.802][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2026-02-28 16:01:44.804][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:44.805][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2026-02-28 16:01:44.806][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:44.807][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-02-28 16:01:44.808][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:44.809][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-02-28 16:01:44.810][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-02-28 16:01:44.811][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-02-28 16:01:44.811][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2026-02-28 16:01:44.812][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-02-28 16:01:44.813][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2026-02-28 16:01:44.814][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2026-02-28 16:01:44.815][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-02-28 16:01:44.816][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-02-28 16:01:44.817][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:44.818][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2026-02-28 16:01:44.819][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-02-28 16:01:44.820][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-02-28 16:01:44.821][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-02-28 16:01:44.822][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-02-28 16:01:44.823][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-02-28 16:01:44.824][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-02-28 16:01:44.824][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-02-28 16:01:44.825][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-02-28 16:01:44.826][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-02-28 16:01:44.827][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-02-28 16:01:44.828][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-02-28 16:01:44.829][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-02-28 16:01:44.833][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-02-28 16:01:44.834][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:44.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:44.835][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:44.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:44.837][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:44.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:44.839][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:44.840][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:44.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:44.841][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:44.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:44.843][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:44.844][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:44.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:44.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:44.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:44.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:44.848][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:44.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:44.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:44.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:44.852][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:44.853][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:44.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:44.854][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:44.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:44.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:44.857][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:44.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:44.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:44.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:44.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:44.869][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:44.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:44.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:44.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:44.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:44.875][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:44.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:44.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:44.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:44.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:44.880][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:44.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:44.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:44.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:44.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:44.885][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:44.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:44.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:44.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:44.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:44.889][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:44.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:44.891][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:44.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:44.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:44.894][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:44.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:44.896][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:44.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:44.898][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:44.899][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:44.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:44.901][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:44.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:44.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:44.904][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:44.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:44.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:44.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:44.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:44.909][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:44.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:44.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:44.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:44.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:44.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:44.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:44.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:44.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:44.917][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[2026-02-28 16:01:44.919][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2026-02-28 16:01:44.925][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2026-02-28 16:01:44.926][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2026-02-28 16:01:44.928][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2026-02-28 16:01:44.929][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2026-02-28 16:01:44.931][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2026-02-28 16:01:44.932][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2026-02-28 16:01:44.934][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2026-02-28 16:01:44.935][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2026-02-28 16:01:44.936][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2026-02-28 16:01:44.938][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2026-02-28 16:01:44.939][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2026-02-28 16:01:44.941][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2026-02-28 16:01:44.942][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2026-02-28 16:01:44.944][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2026-02-28 16:01:44.945][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2026-02-28 16:01:44.947][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2026-02-28 16:01:44.948][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2026-02-28 16:01:44.950][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2026-02-28 16:01:44.951][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2026-02-28 16:01:44.952][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2026-02-28 16:01:44.954][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2026-02-28 16:01:44.955][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2026-02-28 16:01:44.957][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2026-02-28 16:01:44.958][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2026-02-28 16:01:44.977][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2026-02-28 16:01:44.978][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2026-02-28 16:01:44.980][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2026-02-28 16:01:44.981][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2026-02-28 16:01:44.983][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2026-02-28 16:01:44.984][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2026-02-28 16:01:44.986][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2026-02-28 16:01:44.987][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2026-02-28 16:01:44.989][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2026-02-28 16:01:44.990][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2026-02-28 16:01:44.992][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2026-02-28 16:01:44.993][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2026-02-28 16:01:44.995][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2026-02-28 16:01:44.997][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2026-02-28 16:01:44.998][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2026-02-28 16:01:45.000][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2026-02-28 16:01:45.001][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2026-02-28 16:01:45.002][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2026-02-28 16:01:45.004][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2026-02-28 16:01:45.005][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2026-02-28 16:01:45.007][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2026-02-28 16:01:45.008][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2026-02-28 16:01:45.010][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2026-02-28 16:01:45.011][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2026-02-28 16:01:45.013][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2026-02-28 16:01:45.014][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2026-02-28 16:01:45.016][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2026-02-28 16:01:45.017][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2026-02-28 16:01:45.018][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2026-02-28 16:01:45.020][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2026-02-28 16:01:45.021][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2026-02-28 16:01:45.023][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2026-02-28 16:01:45.024][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2026-02-28 16:01:45.026][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2026-02-28 16:01:45.027][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2026-02-28 16:01:45.028][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2026-02-28 16:01:45.030][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2026-02-28 16:01:45.031][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2026-02-28 16:01:45.033][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2026-02-28 16:01:45.034][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2026-02-28 16:01:45.036][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2026-02-28 16:01:45.037][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2026-02-28 16:01:45.039][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2026-02-28 16:01:45.040][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2026-02-28 16:01:45.041][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2026-02-28 16:01:45.043][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2026-02-28 16:01:45.044][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2026-02-28 16:01:45.046][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2026-02-28 16:01:45.047][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2026-02-28 16:01:45.049][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2026-02-28 16:01:45.050][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2026-02-28 16:01:45.052][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2026-02-28 16:01:45.053][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2026-02-28 16:01:45.054][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2026-02-28 16:01:45.056][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2026-02-28 16:01:45.057][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2026-02-28 16:01:45.059][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2026-02-28 16:01:45.060][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2026-02-28 16:01:45.067][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2026-02-28 16:01:45.068][initialize] This is biodb version 1.19.0.
biodb.DEBUG[2026-02-28 16:01:45.071][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-02-28 16:01:45.072][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.073][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.074][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:45.079][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:45.081][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:45.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.083][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:45.086][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:45.087][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:45.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:45.092][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:45.093][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:45.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.095][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:45.098][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:45.099][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:45.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:45.104][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:45.105][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:45.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:45.110][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:45.111][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:45.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:45.116][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:45.117][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:45.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.119][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:45.122][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:45.124][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:45.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.125][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:45.128][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:45.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:45.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.131][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:45.134][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:45.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:45.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:45.140][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:45.146][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:45.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:45.150][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:45.152][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:45.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.153][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:45.156][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:45.158][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:45.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.159][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:45.162][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:45.164][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:45.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:45.168][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:45.170][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:45.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:45.174][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:45.176][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:45.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:45.181][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/definitions.yml".
biodb.DEBUG[2026-02-28 16:01:45.190][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2026-02-28 16:01:45.192][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-02-28 16:01:45.193][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2026-02-28 16:01:45.194][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:45.195][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-02-28 16:01:45.196][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:45.197][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-02-28 16:01:45.198][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:45.199][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2026-02-28 16:01:45.200][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2026-02-28 16:01:45.201][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-02-28 16:01:45.202][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:45.203][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2026-02-28 16:01:45.204][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-02-28 16:01:45.205][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2026-02-28 16:01:45.205][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2026-02-28 16:01:45.205][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2026-02-28 16:01:45.205][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2026-02-28 16:01:45.205][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2026-02-28 16:01:45.205][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2026-02-28 16:01:45.205][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2026-02-28 16:01:45.205][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2026-02-28 16:01:45.205][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2026-02-28 16:01:45.205][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2026-02-28 16:01:45.205][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2026-02-28 16:01:45.206][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2026-02-28 16:01:45.207][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-02-28 16:01:45.207][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-02-28 16:01:45.207][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-02-28 16:01:45.208][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2026-02-28 16:01:45.209][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-02-28 16:01:45.210][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-02-28 16:01:45.211][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-02-28 16:01:45.211][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-02-28 16:01:45.212][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-02-28 16:01:45.213][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-02-28 16:01:45.214][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2026-02-28 16:01:45.214][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2026-02-28 16:01:45.215][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-02-28 16:01:45.216][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-02-28 16:01:45.217][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:45.218][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2026-02-28 16:01:45.218][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2026-02-28 16:01:45.223][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2026-02-28 16:01:45.225][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2026-02-28 16:01:45.227][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2026-02-28 16:01:45.228][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2026-02-28 16:01:45.229][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2026-02-28 16:01:45.231][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2026-02-28 16:01:45.252][super$initialize] Initialize connector chebi.
biodb.DEBUG[2026-02-28 16:01:45.267][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2026-02-28 16:01:45.275][biodb::testThat]
biodb.INFO [2026-02-28 16:01:45.276][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2026-02-28 16:01:45.277][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-28 16:01:45.277][biodb::testThat]
biodb.TRACE[2026-02-28 16:01:45.281][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2026-02-28 16:01:45.282][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-02-28 16:01:45.286][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-02-28 16:01:45.293][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-02-28 16:01:45.294][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:45.295][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:45.307][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.309][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-02-28 16:01:45.319][ef$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:45.320][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:45.321][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.322][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:45.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:45.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.347][ef$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:45.348][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:45.349][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.350][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.375][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:45.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:45.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.379][ef$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:45.380][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:45.381][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.382][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.383][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:45.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:45.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.387][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:45.388][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:45.389][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.390][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.391][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:45.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:45.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.395][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:45.396][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:45.397][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.398][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.399][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:45.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:45.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.403][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:45.404][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:45.405][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.406][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.407][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:45.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:45.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.411][ef$get] Asked field names are: mass.
biodb.TRACE[2026-02-28 16:01:45.412][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:45.413][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.414][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.415][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-02-28 16:01:45.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:45.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.419][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:45.420][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:45.421][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.422][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.423][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:45.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:45.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.427][ef$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:45.428][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:45.429][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.430][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.431][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:45.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:45.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.435][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-02-28 16:01:45.436][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:45.437][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.438][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.439][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-02-28 16:01:45.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:45.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.443][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:45.444][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:45.445][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.446][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.447][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:45.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:45.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:45.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:45.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.458][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:45.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:45.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:45.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:45.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.466][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:45.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:45.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:45.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:45.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:45.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:45.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.477][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:45.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:45.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:45.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:45.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:45.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:45.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:45.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:45.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-02-28 16:01:45.523][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2026-02-28 16:01:45.526][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:45.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:45.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.530][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:45.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:45.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.555][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:45.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:45.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.559][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:45.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:45.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.562][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:45.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:45.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.566][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:45.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:45.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.611][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-02-28 16:01:45.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-02-28 16:01:45.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.615][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-02-28 16:01:45.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-02-28 16:01:45.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.619][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-02-28 16:01:45.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-02-28 16:01:45.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.623][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-02-28 16:01:45.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-02-28 16:01:45.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:45.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:45.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.644][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:45.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:45.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.651][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:45.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:45.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:45.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:45.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.659][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:45.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:45.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.665][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:45.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:45.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.669][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:45.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:45.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.673][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:45.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:45.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.677][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:45.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:45.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.681][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:45.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:45.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.684][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:45.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:45.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.695][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:45.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:45.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.699][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:45.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:45.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.702][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:45.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:45.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.706][ef$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:45.707][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:45.708][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.709][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.710][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:45.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:45.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.722][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:45.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:45.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.725][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:45.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:45.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:45.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:45.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.733][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:45.734][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:45.735][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.736][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.737][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:45.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:45.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.752][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:45.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:45.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.756][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:45.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:45.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.759][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:45.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:45.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.763][ef$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:45.764][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:45.765][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.766][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.767][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:45.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:45.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.778][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:45.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:45.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.782][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:45.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:45.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.785][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:45.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:45.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.789][ef$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:45.790][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:45.791][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.792][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.793][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:45.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:45.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.804][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:45.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:45.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.808][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:45.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:45.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.812][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:45.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:45.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.815][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:45.816][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:45.817][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.818][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.819][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:45.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:45.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.830][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:45.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:45.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.834][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:45.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:45.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.838][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:45.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:45.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.841][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:45.843][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:45.843][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.844][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.845][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:45.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:45.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.856][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:45.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:45.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.860][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:45.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:45.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.864][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:45.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:45.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.871][ef$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:45.872][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:45.873][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.874][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.875][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:45.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:45.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.886][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-28 16:01:45.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:45.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.890][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-28 16:01:45.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:45.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.894][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-28 16:01:45.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:45.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.898][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-28 16:01:45.899][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:45.899][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.900][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.901][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-28 16:01:45.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:45.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.912][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:45.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:45.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.916][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:45.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:45.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.920][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:45.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:45.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.924][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:45.925][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:45.926][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.927][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.928][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:45.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:45.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.938][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:45.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:45.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.942][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:45.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:45.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.946][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:45.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:45.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.950][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:45.951][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:45.952][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.953][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.954][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:45.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:45.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.964][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:45.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:45.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.968][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:45.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:45.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.972][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:45.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:45.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.976][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:45.977][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:45.978][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.979][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.980][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:45.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:45.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.990][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:45.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:45.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.994][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:45.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:46.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.002][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:46.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:46.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.005][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:46.007][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:46.007][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.008][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.009][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:46.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:46.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.020][ef$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.021][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.022][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.023][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.027][ef$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:46.028][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:46.029][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.030][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.034][ef$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:46.035][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:46.036][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.036][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.040][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:46.041][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:46.042][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.043][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.047][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.048][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.049][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.050][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.054][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.055][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.056][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.057][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.061][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.062][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.063][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.063][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.067][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.068][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.069][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.070][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.074][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-28 16:01:46.075][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:46.076][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.077][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.081][ef$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:46.082][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:46.083][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.084][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.088][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:46.089][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:46.090][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.090][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.106][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-2528-content.xml".
biodb.DEBUG[2026-02-28 16:01:46.143][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-02-28 16:01:46.144][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-02-28 16:01:46.146][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-02-28 16:01:46.146][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:46.147][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:46.151][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:46.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:46.153][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:46.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-02-28 16:01:46.156][ef$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.157][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.158][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.159][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.160][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.179][ef$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:46.180][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:46.181][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.182][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.183][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:46.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:46.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.187][ef$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:46.188][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:46.189][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.190][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.192][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:46.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:46.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.196][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:46.197][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:46.198][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.198][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.200][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:46.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:46.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.204][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.205][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.205][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.206][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.207][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.211][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.212][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.213][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.214][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.215][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.219][ef$get] Asked field names are: mass.
biodb.TRACE[2026-02-28 16:01:46.220][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.221][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.222][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.223][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-02-28 16:01:46.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.227][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.228][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.229][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.230][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.231][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.235][ef$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:46.236][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:46.241][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.242][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.243][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:46.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:46.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.247][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-02-28 16:01:46.248][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:46.249][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.250][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.251][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-02-28 16:01:46.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:46.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.255][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:46.256][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:46.257][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.257][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.259][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:46.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:46.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.263][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.266][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.274][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.278][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.282][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.297][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-02-28 16:01:46.301][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 2528.
biodb.TRACE[2026-02-28 16:01:46.320][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:46.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:46.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.324][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:46.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:46.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.328][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.332][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.336][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.339][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.343][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-02-28 16:01:46.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-02-28 16:01:46.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.347][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-02-28 16:01:46.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-02-28 16:01:46.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.351][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-02-28 16:01:46.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-02-28 16:01:46.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.355][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-02-28 16:01:46.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-02-28 16:01:46.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.360][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.370][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.377][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.390][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.398][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.402][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.406][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.410][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.428][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.436][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.440][ef$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.441][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.442][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.442][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.454][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.458][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.462][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.466][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.467][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.468][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.469][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.469][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.480][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:46.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:46.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.484][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:46.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:46.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.488][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:46.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:46.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.495][ef$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:46.496][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:46.497][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.498][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.499][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:46.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:46.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.510][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:46.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:46.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.514][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:46.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:46.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.518][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:46.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:46.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.522][ef$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:46.523][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:46.524][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.524][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.525][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:46.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:46.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.536][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-02-28 16:01:46.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.540][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.544][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.548][ef$get] Asked field names are: mass.
biodb.TRACE[2026-02-28 16:01:46.549][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.550][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.551][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.552][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-02-28 16:01:46.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.566][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.570][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.574][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.575][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.576][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.577][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.578][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.589][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.592][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.596][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.600][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.601][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.602][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.603][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.604][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.615][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:46.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:46.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.622][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:46.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:46.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.626][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:46.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:46.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.630][ef$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:46.631][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:46.632][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.633][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.634][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:46.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:46.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.645][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-28 16:01:46.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:46.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.649][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-28 16:01:46.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:46.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.653][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-28 16:01:46.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:46.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.657][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-28 16:01:46.658][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:46.659][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.660][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.661][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-28 16:01:46.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:46.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.672][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.676][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.680][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.684][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.685][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.686][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.687][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.688][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.698][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:46.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:46.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.702][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:46.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:46.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.706][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:46.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:46.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.710][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:46.711][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:46.712][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.713][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.714][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:46.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:46.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.725][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.729][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.732][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.736][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.737][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.738][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.739][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.740][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.755][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:46.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:46.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.758][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:46.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:46.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.762][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:46.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:46.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.766][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:46.767][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:46.768][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.769][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.770][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:46.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:46.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.781][ef$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.782][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.783][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.784][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.788][ef$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:46.789][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:46.790][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.791][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.795][ef$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:46.796][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:46.797][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.798][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.802][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:46.803][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:46.803][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.804][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.808][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.809][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.810][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.811][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.815][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.816][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.817][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.818][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.822][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.823][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.824][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.825][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.829][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.830][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.831][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.832][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.836][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-28 16:01:46.837][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:46.838][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.839][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.843][ef$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:46.844][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:46.845][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.846][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.849][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:46.851][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:46.851][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.852][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.857][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-7799-content.xml".
biodb.DEBUG[2026-02-28 16:01:46.858][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-02-28 16:01:46.859][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-02-28 16:01:46.860][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-02-28 16:01:46.861][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:46.862][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:46.866][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:46.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:46.868][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:46.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-02-28 16:01:46.871][ef$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.872][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.873][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.874][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.879][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.883][ef$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:46.884][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:46.884][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.885][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.887][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:46.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:46.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.890][ef$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:46.891][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:46.892][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.893][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.894][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:46.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:46.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.898][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:46.899][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:46.900][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.901][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.902][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:46.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:46.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.906][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.907][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.908][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.909][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.910][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.914][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.915][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.916][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.917][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.918][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.922][ef$get] Asked field names are: mass.
biodb.TRACE[2026-02-28 16:01:46.923][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.924][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.925][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.926][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-02-28 16:01:46.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.930][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.931][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.932][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.933][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.934][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.938][ef$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:46.939][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:46.939][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.940][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.942][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:46.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:46.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.946][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-02-28 16:01:46.947][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:46.947][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.948][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.949][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-02-28 16:01:46.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:46.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.953][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:46.954][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:46.955][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.956][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.957][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:46.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:46.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.961][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.965][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.969][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.973][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.977][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.980][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.984][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.988][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.996][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-02-28 16:01:47.000][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 7799.
biodb.TRACE[2026-02-28 16:01:47.002][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:47.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:47.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.009][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:47.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:47.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.013][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.017][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.020][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.024][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.028][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-02-28 16:01:47.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-02-28 16:01:47.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.032][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-02-28 16:01:47.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-02-28 16:01:47.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.036][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-02-28 16:01:47.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-02-28 16:01:47.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.040][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-02-28 16:01:47.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-02-28 16:01:47.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.052][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.059][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.063][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.075][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.079][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.083][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.087][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.091][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.104][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.107][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.111][ef$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.112][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.113][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.114][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.115][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.126][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:47.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:47.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.130][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:47.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:47.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.134][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:47.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:47.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.141][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:47.142][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:47.143][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.144][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.145][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:47.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:47.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.156][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:47.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:47.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.160][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:47.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:47.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.163][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:47.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:47.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.167][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:47.168][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:47.169][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.170][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.171][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:47.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:47.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.182][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.185][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.189][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.193][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.194][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.195][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.196][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.197][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.208][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.212][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.215][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.219][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.220][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.221][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.222][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.223][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.234][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.238][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.241][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.245][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.246][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.247][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.248][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.249][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.260][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.267][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.271][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.275][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.276][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.277][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.278][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.279][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.289][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:47.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:47.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.293][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:47.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:47.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.297][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:47.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:47.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.301][ef$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:47.302][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:47.303][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.304][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.305][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:47.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:47.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.315][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-28 16:01:47.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:47.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.319][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-28 16:01:47.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:47.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.323][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-28 16:01:47.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:47.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.327][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-28 16:01:47.328][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:47.329][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.330][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.331][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-28 16:01:47.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:47.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.342][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:47.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:47.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.346][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:47.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:47.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.349][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:47.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:47.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.353][ef$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:47.354][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:47.355][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.356][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.357][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:47.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:47.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.368][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:47.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:47.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.372][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:47.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:47.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.375][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:47.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:47.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.379][ef$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:47.380][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:47.381][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.382][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.383][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:47.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:47.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.398][ef$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.399][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.400][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.401][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.405][ef$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:47.406][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:47.407][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.407][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.411][ef$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:47.412][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:47.413][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.414][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.418][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:47.419][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:47.420][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.421][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.425][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.426][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.427][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.428][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.432][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.433][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.434][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.434][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.438][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.439][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.440][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.441][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.445][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.446][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.447][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.448][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.452][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-28 16:01:47.453][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:47.454][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.455][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.459][ef$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:47.460][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:47.461][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.461][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.465][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:47.466][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:47.467][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.468][ef$get] fields variable is a list.
biodb.INFO [2026-02-28 16:01:47.475][biodb::testThat]
biodb.INFO [2026-02-28 16:01:47.476][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2026-02-28 16:01:47.476][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-28 16:01:47.477][biodb::testThat]
biodb.DEBUG[2026-02-28 16:01:47.479][private$loadEntries] Creating entries from ids [3]: "15440, 2528, 7799".
biodb.DEBUG[2026-02-28 16:01:47.483][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2026-02-28 16:01:47.487][cch$loadContents] Load 3 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2026-02-28 16:01:47.488][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2026-02-28 16:01:47.489][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2026-02-28 16:01:47.490][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2026-02-28 16:01:47.491][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2026-02-28 16:01:47.497][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-02-28 16:01:47.497][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:47.498][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:47.502][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:47.503][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:47.504][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:47.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2026-02-28 16:01:47.507][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
fscache.INFO [2026-02-28 16:01:47.530][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2026-02-28 16:01:47.531][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:01:47.532][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:01:47.534][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-02-28 16:01:57.190][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[2026-02-28 16:01:57.193][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:01:57.195][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[2026-02-28 16:01:57.198][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 [2026-02-28 16:01:57.983][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-02-28 16:01:57.986][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:01:57.988][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:01:57.992][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-02-28 16:01:58.328][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-02-28 16:01:58.331][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:01:58.334][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[2026-02-28 16:01:58.336][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-02-28 16:01:58.785][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-02-28 16:01:58.788][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:01:58.790][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:01:58.794][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-02-28 16:01:59.130][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[2026-02-28 16:01:59.132][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:01:59.135][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[2026-02-28 16:01:59.137][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 [2026-02-28 16:01:59.600][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-02-28 16:01:59.604][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:01:59.606][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:01:59.610][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-02-28 16:01:59.944][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[2026-02-28 16:01:59.947][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:01:59.950][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[2026-02-28 16:01:59.952][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 [2026-02-28 16:02:00.399][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:00.401][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:00.404][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:00.407][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-02-28 16:02:00.744][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[2026-02-28 16:02:00.746][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:00.749][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[2026-02-28 16:02:00.752][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 [2026-02-28 16:02:01.204][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:01.207][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:01.210][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:01.213][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-02-28 16:02:01.553][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[2026-02-28 16:02:01.556][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:01.558][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[2026-02-28 16:02:01.560][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 [2026-02-28 16:02:02.333][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:02.336][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:02.338][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:02.342][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-02-28 16:02:02.674][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[2026-02-28 16:02:02.676][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:02.679][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[2026-02-28 16:02:02.682][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-02-28 16:02:03.132][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:03.134][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:03.135][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:03.136][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-02-28 16:02:03.468][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[2026-02-28 16:02:03.471][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:03.474][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[2026-02-28 16:02:03.476][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 [2026-02-28 16:02:03.927][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:03.930][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:03.933][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:03.936][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-02-28 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=15440 does not exist.
sched.TRACE[2026-02-28 16:02:04.270][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:04.273][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[2026-02-28 16:02:04.276][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 [2026-02-28 16:02:04.723][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:04.726][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:04.729][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:04.732][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-02-28 16:02:05.064][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[2026-02-28 16:02:05.066][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:05.069][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[2026-02-28 16:02:05.071][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 [2026-02-28 16:02:05.533][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
biodb.DEBUG[2026-02-28 16:02:05.538][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-02-28 16:02:05.540][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:02:05.542][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:02:05.555][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:02:05.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:02:05.559][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:02:05.562][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2026-02-28 16:02:05.619][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
fscache.INFO [2026-02-28 16:02:05.651][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2026-02-28 16:02:05.671][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:05.673][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:05.675][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-02-28 16:02:06.007][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-02-28 16:02:06.009][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:06.012][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-28 16:02:06.015][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-02-28 16:02:06.463][private$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[2026-02-28 16:02:06.465][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:06.468][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:06.471][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-02-28 16:02:06.830][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-02-28 16:02:06.832][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:06.835][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-28 16:02:06.837][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-02-28 16:02:07.288][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:07.291][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:07.293][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:07.297][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-02-28 16:02:07.628][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-02-28 16:02:07.630][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:07.632][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-28 16:02:07.635][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-02-28 16:02:08.081][private$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[2026-02-28 16:02:08.084][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:08.087][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:08.090][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-02-28 16:02:08.421][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-02-28 16:02:08.423][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:08.426][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-28 16:02:08.428][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-02-28 16:02:08.875][private$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[2026-02-28 16:02:08.878][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:08.880][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:08.884][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-02-28 16:02:09.219][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-02-28 16:02:09.222][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:09.224][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-28 16:02:09.227][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-02-28 16:02:09.674][private$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[2026-02-28 16:02:09.677][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:09.680][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:09.683][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-02-28 16:02:10.023][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-02-28 16:02:10.025][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:10.028][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-28 16:02:10.031][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-02-28 16:02:10.377][private$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[2026-02-28 16:02:10.380][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:10.382][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:10.386][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-02-28 16:02:10.717][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-02-28 16:02:10.767][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:10.770][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-28 16:02:10.772][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-02-28 16:02:11.218][private$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[2026-02-28 16:02:11.221][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:11.223][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:11.226][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-02-28 16:02:11.560][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-02-28 16:02:11.563][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:11.566][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-28 16:02:11.568][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-02-28 16:02:12.052][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:12.054][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:12.057][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:12.060][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-02-28 16:02:12.391][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-02-28 16:02:12.393][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:12.396][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-28 16:02:12.398][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-02-28 16:02:12.846][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:12.848][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:12.851][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:12.854][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-02-28 16:02:13.214][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-02-28 16:02:13.216][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:13.218][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-28 16:02:13.220][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-02-28 16:02:13.668][private$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[2026-02-28 16:02:13.671][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-02-28 16:02:13.673][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:02:13.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:02:13.687][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:02:13.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:02:13.691][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:02:13.694][FUN] Functions in observer 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[2026-02-28 16:02:13.697][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
fscache.INFO [2026-02-28 16:02:13.702][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2026-02-28 16:02:13.704][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:13.707][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:13.710][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-02-28 16:02:14.062][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[2026-02-28 16:02:14.064][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:14.067][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[2026-02-28 16:02:14.069][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 [2026-02-28 16:02:14.519][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:14.521][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:14.524][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:14.527][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-02-28 16:02:14.863][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[2026-02-28 16:02:14.865][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:14.868][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[2026-02-28 16:02:14.870][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 [2026-02-28 16:02:15.320][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:15.322][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:15.325][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:15.328][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-02-28 16:02:15.662][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[2026-02-28 16:02:15.664][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:15.667][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[2026-02-28 16:02:15.669][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 [2026-02-28 16:02:16.117][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:16.119][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:16.122][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:16.125][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-02-28 16:02:16.460][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[2026-02-28 16:02:16.462][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:16.465][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[2026-02-28 16:02:16.467][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 [2026-02-28 16:02:16.915][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:16.918][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:16.920][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:16.923][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-02-28 16:02:17.258][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[2026-02-28 16:02:17.262][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:17.265][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[2026-02-28 16:02:17.267][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 [2026-02-28 16:02:17.714][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:17.717][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:17.720][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:17.723][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-02-28 16:02:18.102][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[2026-02-28 16:02:18.105][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:18.108][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[2026-02-28 16:02:18.111][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-02-28 16:02:18.894][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:18.895][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:18.896][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:18.897][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-02-28 16:02:19.230][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[2026-02-28 16:02:19.233][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:19.235][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[2026-02-28 16:02:19.238][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 [2026-02-28 16:02:19.685][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:19.688][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:19.691][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:19.694][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-02-28 16:02:20.036][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[2026-02-28 16:02:20.038][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:20.041][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[2026-02-28 16:02:20.044][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 [2026-02-28 16:02:20.491][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:20.493][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:20.496][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:20.499][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-02-28 16:02:20.833][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[2026-02-28 16:02:20.835][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:20.837][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[2026-02-28 16:02:20.840][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 [2026-02-28 16:02:21.288][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:21.291][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:21.294][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:21.330][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-02-28 16:02:21.685][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[2026-02-28 16:02:21.687][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:21.690][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[2026-02-28 16:02:21.692][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 [2026-02-28 16:02:22.138][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
fscache.INFO [2026-02-28 16:02:22.142][cch$saveContents] Save 3 contents to /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2026-02-28 16:02:22.145][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2026-02-28 16:02:22.149][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2026-02-28 16:02:22.152][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2026-02-28 16:02:22.156][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-02-28 16:02:22.158][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:02:22.160][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:02:22.172][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:02:22.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:02:22.176][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:02:22.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-02-28 16:02:22.182][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:02:22.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:02:22.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:22.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:22.190][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:02:22.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:02:22.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:22.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:22.197][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:02:22.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:02:22.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:22.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-02-28 16:02:22.203][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-02-28 16:02:22.204][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:02:22.206][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:02:22.212][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:02:22.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:02:22.214][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:02:22.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-02-28 16:02:22.217][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:02:22.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:02:22.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:22.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:22.222][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:02:22.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:02:22.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:22.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:22.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:02:22.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:02:22.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:22.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-02-28 16:02:22.230][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-02-28 16:02:22.231][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:02:22.232][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:02:22.237][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:02:22.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:02:22.239][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:02:22.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-02-28 16:02:22.241][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:02:22.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:02:22.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:22.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:22.246][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:02:22.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:02:22.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:22.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:22.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:02:22.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:02:22.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:22.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:22.254][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:02:22.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:02:22.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:22.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:22.258][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:02:22.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:02:22.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:22.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:22.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:02:22.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:02:22.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:22.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:22.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:02:22.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:02:22.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:22.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:22.269][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:02:22.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:02:22.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:22.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:22.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:02:22.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:02:22.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:22.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:22.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:02:22.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:02:22.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:22.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:22.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:02:22.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:02:22.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:22.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:22.285][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:02:22.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:02:22.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:22.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:22.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:02:22.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:02:22.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:22.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:22.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:02:22.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:02:22.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:22.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:22.302][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:02:22.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:02:22.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:22.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:22.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:02:22.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:02:22.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:22.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:22.309][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:02:22.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:02:22.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:22.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:22.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:02:22.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:02:22.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:22.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-02-28 16:02:22.317][self$createEntryFromContent] Accession numbers: NA, NA, NA.
biodb.DEBUG[2026-02-28 16:02:22.318][self$createEntryFromContent] Found 3 entry/ies without an accession number. Set it/them to NULL.
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-02-28 16:02:22.451][biodb::testThat]
biodb.INFO [2026-02-28 16:02:22.452][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2026-02-28 16:02:22.453][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-28 16:02:22.454][biodb::testThat]
biodb.TRACE[2026-02-28 16:02:22.457][ef$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:02:22.458][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:02:22.459][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:22.460][ef$get] fields variable is a list.
biodb.DEBUG[2026-02-28 16:02:22.461][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 [2026-02-28 16:02:22.711][biodb::testThat]
biodb.INFO [2026-02-28 16:02:22.712][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2026-02-28 16:02:22.713][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-28 16:02:22.714][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-02-28 16:02:22.964][biodb::testThat]
biodb.INFO [2026-02-28 16:02:22.965][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2026-02-28 16:02:22.966][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-28 16:02:22.967][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-02-28 16:02:23.063][biodb::testThat]
biodb.INFO [2026-02-28 16:02:23.064][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2026-02-28 16:02:23.065][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-28 16:02:23.066][biodb::testThat]
biodb.INFO [2026-02-28 16:02:23.075][biodb::testThat]
biodb.INFO [2026-02-28 16:02:23.076][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2026-02-28 16:02:23.078][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-28 16:02:23.079][biodb::testThat]
biodb.INFO [2026-02-28 16:02:23.086][biodb::testThat]
biodb.INFO [2026-02-28 16:02:23.087][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2026-02-28 16:02:23.088][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-28 16:02:23.089][biodb::testThat]
biodb.DEBUG[2026-02-28 16:02:23.093][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2026-02-28 16:02:23.698][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2026-02-28 16:02:24.059][biodb::testThat]
biodb.INFO [2026-02-28 16:02:24.062][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2026-02-28 16:02:24.065][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-28 16:02:24.067][biodb::testThat]
biodb.TRACE[2026-02-28 16:02:24.103][ef$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:02:24.105][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:02:24.106][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:24.108][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:24.109][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:02:24.110][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:02:24.112][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:24.113][ef$get] fields variable is a list.
biodb.INFO [2026-02-28 16:02:24.115][biodb::testThat]
biodb.INFO [2026-02-28 16:02:24.116][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2026-02-28 16:02:24.117][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-28 16:02:24.118][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-02-28 16:02:24.227][biodb::testThat]
biodb.INFO [2026-02-28 16:02:24.228][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2026-02-28 16:02:24.229][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-28 16:02:24.231][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-02-28 16:02:24.281][biodb::testThat]
biodb.INFO [2026-02-28 16:02:24.282][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2026-02-28 16:02:24.283][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-28 16:02:24.284][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-02-28 16:02:24.324][biodb::testThat]
biodb.INFO [2026-02-28 16:02:24.325][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2026-02-28 16:02:24.326][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-28 16:02:24.327][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.TRACE[2026-02-28 16:02:24.369][ef$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:02:24.370][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:02:24.371][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:24.372][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:24.373][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:02:24.374][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:02:24.375][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:24.376][ef$get] fields variable is a list.
biodb.INFO [2026-02-28 16:02:24.377][biodb::testThat]
biodb.INFO [2026-02-28 16:02:24.378][biodb::testThat] Running test function  test.annotateMzValues_real_values  (" annotateMzValues() works correctly with real values. ").
biodb.INFO [2026-02-28 16:02:24.379][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-28 16:02:24.380][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-02-28 16:02:24.421][biodb::testThat]
biodb.INFO [2026-02-28 16:02:24.422][biodb::testThat] Running test function  test_annotateMzValues_additional_fields  (" Additional fields are accepted in annotateMzValues() ").
biodb.INFO [2026-02-28 16:02:24.423][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-28 16:02:24.424][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-02-28 16:02:24.465][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2026-02-28 16:02:24.467][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2026-02-28 16:02:24.467][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2026-02-28 16:02:24.468][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:02:24.469][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:02:24.470][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:02:24.471][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:02:24.472][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:02:24.473][FUN] Functions in observer 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_1.17.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck’
* using R Under development (unstable) (2026-01-15 r89304)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
    GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.3 LTS
* using session charset: UTF-8
* using options ‘--no-codoc --no-examples --no-manual --ignore-vignettes --no-stop-on-test-error’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.17.1’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘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 ‘1.17.1’
** 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)