Back to Long Tests report for BioC 3.22

This page was generated on 2026-03-07 23:55 -0500 (Sat, 07 Mar 2026).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.2 (2025-10-31) -- "[Not] Part in a Rumble" 4892
merida1macOS 12.7.6 Montereyx86_644.5.2 (2025-10-31) -- "[Not] Part in a Rumble" 4684
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 5/31HostnameOS / ArchCHECK
biodbChebi 1.16.0  (landing page)
Pierrick Roger
Snapshot Date: 2026-03-07 09:55 -0500 (Sat, 07 Mar 2026)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: RELEASE_3_22
git_last_commit: 28c1b2d
git_last_commit_date: 2025-10-29 11:12:25 -0500 (Wed, 29 Oct 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  ERROR  
merida1macOS 12.7.6 Monterey / x86_64  ERROR  

CHECK results for biodbChebi on merida1

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: 1.16.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbChebi_1.16.0.tar.gz
StartedAt: 2026-03-07 16:01:50 -0500 (Sat, 07 Mar 2026)
EndedAt: 2026-03-07 16:03:21 -0500 (Sat, 07 Mar 2026)
EllapsedTime: 90.8 seconds
RetCode: 1
Status:   ERROR  
CheckDir: biodbChebi.Rcheck
Warnings: NA

Tests output

biodbChebi.Rcheck/tests/testthat.Rout.fail


R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin20

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> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2026-03-07 16:02:38.541][biodb::testContext]
biodb.INFO [2026-03-07 16:02:38.545][biodb::testContext] ********************************************************************************
biodb.INFO [2026-03-07 16:02:38.546][biodb::testContext] Test context - Generic long tests
biodb.INFO [2026-03-07 16:02:38.547][biodb::testContext] ********************************************************************************
biodb.INFO [2026-03-07 16:02:38.548][biodb::testContext]
biodb.INFO [2026-03-07 16:02:38.555][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2026-03-07 16:02:38.558][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2026-03-07 16:02:38.566][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-03-07 16:02:38.567][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2026-03-07 16:02:38.569][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2026-03-07 16:02:38.570][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:38.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:38.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-07 16:02:38.574][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2026-03-07 16:02:38.598][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2026-03-07 16:02:38.599][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:38.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:38.601][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[2026-03-07 16:02:38.602][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2026-03-07 16:02:38.604][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2026-03-07 16:02:38.605][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:38.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:38.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-07 16:02:38.609][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2026-03-07 16:02:38.610][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2026-03-07 16:02:38.611][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2026-03-07 16:02:38.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:38.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:38.615][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[2026-03-07 16:02:38.616][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2026-03-07 16:02:38.617][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2026-03-07 16:02:38.618][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2026-03-07 16:02:38.620][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:38.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:38.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-07 16:02:38.623][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2026-03-07 16:02:38.624][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2026-03-07 16:02:38.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:38.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:38.628][FUN] Functions in observer BiodbConfig: [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[2026-03-07 16:02:38.629][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2026-03-07 16:02:38.630][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2026-03-07 16:02:38.632][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2026-03-07 16:02:38.633][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:38.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:38.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-07 16:02:38.636][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2026-03-07 16:02:38.638][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2026-03-07 16:02:38.639][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:38.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:38.641][FUN] Functions in observer BiodbConfig: [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[2026-03-07 16:02:38.643][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2026-03-07 16:02:38.644][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2026-03-07 16:02:38.645][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2026-03-07 16:02:38.646][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:38.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:38.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-07 16:02:38.650][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2026-03-07 16:02:38.651][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2026-03-07 16:02:38.653][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2026-03-07 16:02:38.654][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2026-03-07 16:02:38.655][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2026-03-07 16:02:38.657][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2026-03-07 16:02:38.658][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:38.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:38.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-07 16:02:38.661][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2026-03-07 16:02:38.663][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2026-03-07 16:02:38.664][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:38.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:38.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-07 16:02:38.667][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2026-03-07 16:02:38.669][self$set] Set key entries.sep to "|".
biodb.DEBUG[2026-03-07 16:02:38.670][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:38.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:38.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-07 16:02:38.674][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2026-03-07 16:02:38.675][self$set] Set key offline to FALSE.
biodb.DEBUG[2026-03-07 16:02:38.676][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:38.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:38.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-07 16:02:38.680][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2026-03-07 16:02:38.687][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2026-03-07 16:02:38.688][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2026-03-07 16:02:38.689][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:38.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:38.691][FUN] Functions in observer BiodbConfig: [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[2026-03-07 16:02:38.693][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2026-03-07 16:02:38.694][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2026-03-07 16:02:38.705][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2026-03-07 16:02:38.706][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:38.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:38.708][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-07 16:02:38.709][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2026-03-07 16:02:38.711][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2026-03-07 16:02:38.712][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2026-03-07 16:02:38.713][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:38.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:38.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-07 16:02:38.719][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2026-03-07 16:02:38.762][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-03-07 16:02:38.783][self$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[2026-03-07 16:02:38.785][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-03-07 16:02:38.786][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-03-07 16:02:38.787][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-03-07 16:02:38.789][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-03-07 16:02:38.790][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-03-07 16:02:38.791][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-03-07 16:02:38.792][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2026-03-07 16:02:38.793][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-03-07 16:02:38.795][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-03-07 16:02:38.796][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2026-03-07 16:02:38.797][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-03-07 16:02:38.798][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-03-07 16:02:38.800][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-03-07 16:02:38.801][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-03-07 16:02:38.801][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-03-07 16:02:38.801][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-03-07 16:02:38.801][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2026-03-07 16:02:38.801][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2026-03-07 16:02:38.802][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-03-07 16:02:38.803][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-07 16:02:38.805][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-07 16:02:38.806][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-03-07 16:02:38.807][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-07 16:02:38.808][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-07 16:02:38.809][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-03-07 16:02:38.810][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-03-07 16:02:38.812][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-03-07 16:02:38.813][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-03-07 16:02:38.814][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-03-07 16:02:38.815][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-03-07 16:02:38.817][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2026-03-07 16:02:38.819][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-03-07 16:02:38.820][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2026-03-07 16:02:38.822][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-03-07 16:02:38.823][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-03-07 16:02:38.824][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-03-07 16:02:38.825][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-03-07 16:02:38.826][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-03-07 16:02:38.828][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-03-07 16:02:38.829][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2026-03-07 16:02:38.830][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-03-07 16:02:38.831][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-03-07 16:02:38.833][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2026-03-07 16:02:38.834][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-03-07 16:02:38.835][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-03-07 16:02:38.836][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-03-07 16:02:38.838][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-03-07 16:02:38.838][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-03-07 16:02:38.838][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-03-07 16:02:38.838][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2026-03-07 16:02:38.838][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2026-03-07 16:02:38.839][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-03-07 16:02:38.840][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-07 16:02:38.841][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-07 16:02:38.842][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-03-07 16:02:38.844][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-07 16:02:38.845][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-07 16:02:38.846][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-03-07 16:02:38.847][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-03-07 16:02:38.848][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-03-07 16:02:38.850][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-03-07 16:02:38.851][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-03-07 16:02:38.852][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-03-07 16:02:38.854][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2026-03-07 16:02:38.856][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2026-03-07 16:02:38.857][self$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[2026-03-07 16:02:38.858][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-03-07 16:02:38.860][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-03-07 16:02:38.861][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-03-07 16:02:38.862][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-03-07 16:02:38.863][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-03-07 16:02:38.865][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-03-07 16:02:38.866][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2026-03-07 16:02:38.867][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-03-07 16:02:38.868][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2026-03-07 16:02:38.870][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2026-03-07 16:02:38.871][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-03-07 16:02:38.872][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-03-07 16:02:38.873][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-03-07 16:02:38.875][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2026-03-07 16:02:38.876][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-03-07 16:02:38.877][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-07 16:02:38.878][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-07 16:02:38.879][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-03-07 16:02:38.880][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-07 16:02:38.882][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-07 16:02:38.883][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-03-07 16:02:38.884][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-03-07 16:02:38.885][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-03-07 16:02:38.886][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-03-07 16:02:38.887][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-03-07 16:02:38.889][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-03-07 16:02:38.890][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2026-03-07 16:02:38.892][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2026-03-07 16:02:38.894][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2026-03-07 16:02:38.895][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-03-07 16:02:38.896][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-03-07 16:02:38.897][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-03-07 16:02:38.899][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-03-07 16:02:38.900][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-03-07 16:02:38.901][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-03-07 16:02:38.902][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2026-03-07 16:02:38.904][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-03-07 16:02:38.905][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2026-03-07 16:02:38.906][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2026-03-07 16:02:38.907][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-03-07 16:02:38.909][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-03-07 16:02:38.910][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-03-07 16:02:38.911][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2026-03-07 16:02:38.912][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-03-07 16:02:38.914][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-07 16:02:38.915][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-07 16:02:38.916][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-03-07 16:02:38.917][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-07 16:02:38.918][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-07 16:02:38.919][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-03-07 16:02:38.921][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-03-07 16:02:38.922][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-03-07 16:02:38.923][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-03-07 16:02:38.924][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-03-07 16:02:38.925][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-03-07 16:02:38.934][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-03-07 16:02:38.935][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:38.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-07 16:02:38.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:38.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:38.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:38.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:38.942][FUN] Functions in observer BiodbConfig: [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[2026-03-07 16:02:38.943][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:38.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:38.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:38.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:38.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-07 16:02:38.949][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:38.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:38.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:38.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:38.953][FUN] Functions in observer BiodbConfig: [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[2026-03-07 16:02:38.954][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:38.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:38.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:38.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:38.958][FUN] Functions in observer BiodbConfig: [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[2026-03-07 16:02:38.960][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:38.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:38.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:38.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:38.964][FUN] Functions in observer BiodbConfig: [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[2026-03-07 16:02:38.965][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:38.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:38.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:38.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:38.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-07 16:02:38.971][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:38.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:38.973][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:38.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:38.975][FUN] Functions in observer BiodbConfig: [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[2026-03-07 16:02:38.976][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:38.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:38.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:38.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:38.981][FUN] Functions in observer BiodbConfig: [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[2026-03-07 16:02:38.982][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:38.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:38.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:38.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:38.986][FUN] Functions in observer BiodbConfig: [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[2026-03-07 16:02:38.987][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:38.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:38.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:38.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:38.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-07 16:02:38.993][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:38.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:38.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:38.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:38.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-07 16:02:38.998][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:39.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:39.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:39.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:39.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-07 16:02:39.004][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:39.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:39.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:39.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:39.009][FUN] Functions in observer BiodbConfig: [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[2026-03-07 16:02:39.010][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:39.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:39.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:39.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:39.014][FUN] Functions in observer BiodbConfig: [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[2026-03-07 16:02:39.015][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:39.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:39.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:39.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:39.020][FUN] Functions in observer BiodbConfig: [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[2026-03-07 16:02:39.021][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:39.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:39.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:39.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:39.025][FUN] Functions in observer BiodbConfig: [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[2026-03-07 16:02:39.026][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2026-03-07 16:02:39.031][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2026-03-07 16:02:39.033][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2026-03-07 16:02:39.034][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2026-03-07 16:02:39.036][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2026-03-07 16:02:39.038][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2026-03-07 16:02:39.039][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2026-03-07 16:02:39.041][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2026-03-07 16:02:39.043][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2026-03-07 16:02:39.044][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2026-03-07 16:02:39.046][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2026-03-07 16:02:39.048][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2026-03-07 16:02:39.049][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2026-03-07 16:02:39.051][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2026-03-07 16:02:39.053][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2026-03-07 16:02:39.055][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2026-03-07 16:02:39.056][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2026-03-07 16:02:39.058][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2026-03-07 16:02:39.060][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2026-03-07 16:02:39.061][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2026-03-07 16:02:39.063][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2026-03-07 16:02:39.065][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2026-03-07 16:02:39.066][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2026-03-07 16:02:39.068][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2026-03-07 16:02:39.070][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2026-03-07 16:02:39.072][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2026-03-07 16:02:39.073][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2026-03-07 16:02:39.075][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2026-03-07 16:02:39.077][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2026-03-07 16:02:39.078][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2026-03-07 16:02:39.080][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2026-03-07 16:02:39.082][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2026-03-07 16:02:39.083][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2026-03-07 16:02:39.085][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2026-03-07 16:02:39.087][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2026-03-07 16:02:39.089][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2026-03-07 16:02:39.090][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2026-03-07 16:02:39.092][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2026-03-07 16:02:39.094][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2026-03-07 16:02:39.095][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2026-03-07 16:02:39.097][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2026-03-07 16:02:39.099][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2026-03-07 16:02:39.101][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2026-03-07 16:02:39.102][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2026-03-07 16:02:39.104][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2026-03-07 16:02:39.106][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2026-03-07 16:02:39.107][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2026-03-07 16:02:39.109][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2026-03-07 16:02:39.111][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2026-03-07 16:02:39.113][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2026-03-07 16:02:39.114][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2026-03-07 16:02:39.116][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2026-03-07 16:02:39.118][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2026-03-07 16:02:39.120][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2026-03-07 16:02:39.121][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2026-03-07 16:02:39.123][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2026-03-07 16:02:39.125][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2026-03-07 16:02:39.127][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2026-03-07 16:02:39.129][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2026-03-07 16:02:39.131][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2026-03-07 16:02:39.133][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2026-03-07 16:02:39.134][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2026-03-07 16:02:39.136][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2026-03-07 16:02:39.138][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2026-03-07 16:02:39.140][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2026-03-07 16:02:39.141][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2026-03-07 16:02:39.143][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2026-03-07 16:02:39.145][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2026-03-07 16:02:39.147][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2026-03-07 16:02:39.148][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2026-03-07 16:02:39.150][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2026-03-07 16:02:39.152][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2026-03-07 16:02:39.153][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2026-03-07 16:02:39.155][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2026-03-07 16:02:39.157][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2026-03-07 16:02:39.163][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2026-03-07 16:02:39.165][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2026-03-07 16:02:39.167][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2026-03-07 16:02:39.168][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2026-03-07 16:02:39.170][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2026-03-07 16:02:39.172][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2026-03-07 16:02:39.173][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2026-03-07 16:02:39.175][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2026-03-07 16:02:39.183][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2026-03-07 16:02:39.185][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2026-03-07 16:02:39.188][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-03-07 16:02:39.189][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:39.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:39.191][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:39.192][FUN] Functions in observer BiodbConfig: [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[2026-03-07 16:02:39.199][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:39.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-07 16:02:39.202][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-07 16:02:39.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:39.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:39.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:39.206][FUN] Functions in observer BiodbConfig: [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[2026-03-07 16:02:39.207][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:39.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-07 16:02:39.210][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-07 16:02:39.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:39.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:39.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:39.214][FUN] Functions in observer BiodbConfig: [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[2026-03-07 16:02:39.215][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:39.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-07 16:02:39.217][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-07 16:02:39.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:39.219][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:39.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:39.222][FUN] Functions in observer BiodbConfig: [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[2026-03-07 16:02:39.223][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:39.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-07 16:02:39.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-07 16:02:39.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:39.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:39.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:39.229][FUN] Functions in observer BiodbConfig: [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[2026-03-07 16:02:39.231][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:39.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-07 16:02:39.233][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-07 16:02:39.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:39.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:39.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:39.237][FUN] Functions in observer BiodbConfig: [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[2026-03-07 16:02:39.239][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:39.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-07 16:02:39.241][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-07 16:02:39.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:39.243][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:39.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:39.245][FUN] Functions in observer BiodbConfig: [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[2026-03-07 16:02:39.246][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:39.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-07 16:02:39.249][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-07 16:02:39.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:39.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:39.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:39.253][FUN] Functions in observer BiodbConfig: [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[2026-03-07 16:02:39.254][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:39.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-07 16:02:39.256][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-07 16:02:39.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:39.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:39.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:39.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-07 16:02:39.262][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:39.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-07 16:02:39.264][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-07 16:02:39.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:39.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:39.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:39.269][FUN] Functions in observer BiodbConfig: [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[2026-03-07 16:02:39.270][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:39.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-07 16:02:39.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-07 16:02:39.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:39.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:39.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:39.276][FUN] Functions in observer BiodbConfig: [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[2026-03-07 16:02:39.277][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:39.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-07 16:02:39.280][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-07 16:02:39.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:39.282][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:39.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:39.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-07 16:02:39.285][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:39.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-07 16:02:39.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-07 16:02:39.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:39.290][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:39.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:39.292][FUN] Functions in observer BiodbConfig: [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[2026-03-07 16:02:39.293][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:39.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-07 16:02:39.295][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-07 16:02:39.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:39.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:39.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:39.300][FUN] Functions in observer BiodbConfig: [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[2026-03-07 16:02:39.301][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:39.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-07 16:02:39.303][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-07 16:02:39.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:39.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:39.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:39.309][FUN] Functions in observer BiodbConfig: [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[2026-03-07 16:02:39.310][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:39.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-07 16:02:39.313][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-07 16:02:39.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:39.315][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:39.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:39.317][FUN] Functions in observer BiodbConfig: [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[2026-03-07 16:02:39.318][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-07 16:02:39.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-07 16:02:39.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-07 16:02:39.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:39.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:39.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:39.325][FUN] Functions in observer BiodbConfig: [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[2026-03-07 16:02:39.328][biodb$loadDefinitions] Load definitions from file "/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/definitions.yml".
biodb.DEBUG[2026-03-07 16:02:39.341][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2026-03-07 16:02:39.343][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-03-07 16:02:39.344][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2026-03-07 16:02:39.346][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-03-07 16:02:39.347][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-03-07 16:02:39.348][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-03-07 16:02:39.349][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-03-07 16:02:39.351][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2026-03-07 16:02:39.352][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2026-03-07 16:02:39.353][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2026-03-07 16:02:39.354][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-03-07 16:02:39.356][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-03-07 16:02:39.357][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2026-03-07 16:02:39.358][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-03-07 16:02:39.359][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2026-03-07 16:02:39.359][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2026-03-07 16:02:39.359][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2026-03-07 16:02:39.359][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2026-03-07 16:02:39.359][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2026-03-07 16:02:39.359][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2026-03-07 16:02:39.359][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2026-03-07 16:02:39.359][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2026-03-07 16:02:39.359][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2026-03-07 16:02:39.359][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2026-03-07 16:02:39.359][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2026-03-07 16:02:39.361][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2026-03-07 16:02:39.362][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-03-07 16:02:39.362][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-03-07 16:02:39.362][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-03-07 16:02:39.363][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2026-03-07 16:02:39.365][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-07 16:02:39.366][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-07 16:02:39.367][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-03-07 16:02:39.368][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-07 16:02:39.369][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-07 16:02:39.370][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-03-07 16:02:39.372][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2026-03-07 16:02:39.372][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2026-03-07 16:02:39.373][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-03-07 16:02:39.374][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-03-07 16:02:39.375][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2026-03-07 16:02:39.376][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2026-03-07 16:02:39.376][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2026-03-07 16:02:39.384][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2026-03-07 16:02:39.386][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2026-03-07 16:02:39.388][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2026-03-07 16:02:39.394][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2026-03-07 16:02:39.396][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2026-03-07 16:02:39.397][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2026-03-07 16:02:39.420][super$initialize] Initialize connector chebi.
biodb.DEBUG[2026-03-07 16:02:39.438][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2026-03-07 16:02:39.447][biodb::testThat]
biodb.INFO [2026-03-07 16:02:39.449][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2026-03-07 16:02:39.450][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-07 16:02:39.451][biodb::testThat]
biodb.TRACE[2026-03-07 16:02:39.456][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2026-03-07 16:02:39.458][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-03-07 16:02:39.461][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-03-07 16:02:39.469][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-07 16:02:39.471][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-07 16:02:39.472][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-07 16:02:39.489][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:39.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:39.491][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:39.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-03-07 16:02:39.502][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:39.503][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:39.504][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.505][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.507][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:39.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:39.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.529][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-07 16:02:39.530][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-07 16:02:39.532][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.533][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.570][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-07 16:02:39.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-07 16:02:39.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.576][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-07 16:02:39.577][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-07 16:02:39.578][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.579][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.581][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-07 16:02:39.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-07 16:02:39.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.586][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-07 16:02:39.587][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-07 16:02:39.589][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.590][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.591][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-07 16:02:39.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-07 16:02:39.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.597][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-07 16:02:39.598][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-07 16:02:39.599][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.600][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.602][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-07 16:02:39.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-07 16:02:39.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.607][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:39.609][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:39.610][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.611][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.613][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:39.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:39.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.618][ef$get] Asked field names are: mass.
biodb.TRACE[2026-03-07 16:02:39.620][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:39.621][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.622][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.624][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-03-07 16:02:39.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:39.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.629][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:39.631][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:39.632][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.633][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.635][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:39.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:39.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.653][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-07 16:02:39.654][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-07 16:02:39.656][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.657][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.659][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-07 16:02:39.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-07 16:02:39.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.665][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-03-07 16:02:39.666][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-07 16:02:39.667][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.669][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.670][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-03-07 16:02:39.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-07 16:02:39.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.676][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-07 16:02:39.677][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-07 16:02:39.679][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.680][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.682][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-07 16:02:39.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-07 16:02:39.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.688][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:02:39.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:02:39.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.694][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:02:39.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:02:39.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.699][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:39.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:39.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.704][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:02:39.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:02:39.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.709][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:39.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:39.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:39.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:39.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.720][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:39.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:39.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.770][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:39.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:39.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.775][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:39.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:39.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.780][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:39.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:39.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-03-07 16:02:39.785][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2026-03-07 16:02:39.788][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-07 16:02:39.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-07 16:02:39.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.793][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-07 16:02:39.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-07 16:02:39.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.867][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-07 16:02:39.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-07 16:02:39.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.872][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-07 16:02:39.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-07 16:02:39.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.877][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:39.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:39.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.882][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:39.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:39.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.887][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-03-07 16:02:39.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-03-07 16:02:39.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.892][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-03-07 16:02:39.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-03-07 16:02:39.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.897][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-03-07 16:02:39.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-03-07 16:02:39.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.902][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-03-07 16:02:39.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-03-07 16:02:39.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:39.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:39.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.931][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:02:39.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:02:39.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.942][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:39.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:39.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.947][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:39.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:39.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.952][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:39.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:39.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.960][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:39.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:39.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.965][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:39.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:39.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.970][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:39.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:39.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.976][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:02:39.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:02:39.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.981][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:02:39.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:02:39.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:39.986][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:02:39.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:02:39.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:39.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:40.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:40.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:40.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:40.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:40.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:40.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.017][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:40.018][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:40.019][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.020][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:40.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:40.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.038][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:02:40.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:02:40.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.043][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:02:40.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:02:40.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.048][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:02:40.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:02:40.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.053][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:02:40.054][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:02:40.055][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.057][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.058][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:02:40.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:02:40.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.079][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-07 16:02:40.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-07 16:02:40.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.084][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-07 16:02:40.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-07 16:02:40.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.089][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-07 16:02:40.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-07 16:02:40.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.095][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-07 16:02:40.096][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-07 16:02:40.097][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.098][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.100][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-07 16:02:40.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-07 16:02:40.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.115][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-07 16:02:40.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-07 16:02:40.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.120][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-07 16:02:40.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-07 16:02:40.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.125][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-07 16:02:40.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-07 16:02:40.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.130][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-07 16:02:40.132][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-07 16:02:40.133][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.134][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.135][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-07 16:02:40.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-07 16:02:40.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.150][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:40.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:40.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.155][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:40.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:40.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.160][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:40.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:40.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.165][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:40.166][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:40.167][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.168][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.170][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:40.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:40.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.185][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:40.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:40.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.190][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:40.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:40.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.195][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:40.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:40.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.200][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:40.201][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:40.202][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.203][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.205][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:40.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:40.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.220][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-07 16:02:40.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-07 16:02:40.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.225][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-07 16:02:40.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-07 16:02:40.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.230][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-07 16:02:40.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-07 16:02:40.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.235][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-07 16:02:40.236][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-07 16:02:40.238][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.239][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.240][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-07 16:02:40.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-07 16:02:40.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.255][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-07 16:02:40.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-07 16:02:40.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.265][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-07 16:02:40.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-07 16:02:40.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.270][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-07 16:02:40.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-07 16:02:40.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.275][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-07 16:02:40.276][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-07 16:02:40.277][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.278][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.279][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-07 16:02:40.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-07 16:02:40.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.294][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:40.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:40.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.299][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:40.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:40.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.304][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:40.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:40.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.309][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:40.311][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:40.312][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.313][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.314][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:40.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:40.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.329][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-07 16:02:40.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-07 16:02:40.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.334][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-07 16:02:40.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-07 16:02:40.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.339][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-07 16:02:40.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-07 16:02:40.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.344][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-07 16:02:40.345][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-07 16:02:40.346][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.347][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.349][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-07 16:02:40.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-07 16:02:40.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.364][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-07 16:02:40.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-07 16:02:40.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.369][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-07 16:02:40.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-07 16:02:40.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.374][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-07 16:02:40.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-07 16:02:40.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.379][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-07 16:02:40.380][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-07 16:02:40.381][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.382][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.384][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-07 16:02:40.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-07 16:02:40.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.399][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-07 16:02:40.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-07 16:02:40.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.404][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-07 16:02:40.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-07 16:02:40.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.409][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-07 16:02:40.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-07 16:02:40.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.414][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-07 16:02:40.415][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-07 16:02:40.416][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.417][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.418][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-07 16:02:40.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-07 16:02:40.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.434][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:40.435][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:40.437][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.438][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.444][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-07 16:02:40.446][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-07 16:02:40.447][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.448][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.459][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-07 16:02:40.460][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-07 16:02:40.461][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.463][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.469][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-07 16:02:40.470][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-07 16:02:40.472][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.473][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.479][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-07 16:02:40.481][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-07 16:02:40.482][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.483][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.489][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:40.491][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:40.492][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.493][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.500][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:40.501][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:40.502][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.504][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.510][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:40.512][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:40.513][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.514][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.520][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-07 16:02:40.522][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-07 16:02:40.523][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.524][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.530][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-07 16:02:40.532][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-07 16:02:40.533][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.534][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.540][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-07 16:02:40.542][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-07 16:02:40.543][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.544][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.567][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-2528-content.xml".
biodb.DEBUG[2026-03-07 16:02:40.614][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-03-07 16:02:40.616][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-03-07 16:02:40.618][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-07 16:02:40.619][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-07 16:02:40.620][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-07 16:02:40.626][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:40.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:40.629][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:40.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-03-07 16:02:40.632][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:40.634][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:40.635][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.636][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:40.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:40.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.670][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-07 16:02:40.671][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-07 16:02:40.672][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.673][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.675][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-07 16:02:40.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-07 16:02:40.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.680][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-07 16:02:40.681][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-07 16:02:40.682][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.684][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.686][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-07 16:02:40.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-07 16:02:40.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.691][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-07 16:02:40.692][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-07 16:02:40.693][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.694][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.696][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-07 16:02:40.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-07 16:02:40.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.701][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-07 16:02:40.702][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-07 16:02:40.703][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.704][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.706][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-07 16:02:40.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-07 16:02:40.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.711][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:40.712][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:40.713][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.715][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.716][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:40.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:40.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.721][ef$get] Asked field names are: mass.
biodb.TRACE[2026-03-07 16:02:40.722][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:40.724][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.725][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.726][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-03-07 16:02:40.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:40.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.731][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:40.733][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:40.734][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.735][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.736][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:40.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:40.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.741][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-07 16:02:40.743][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-07 16:02:40.744][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.745][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.747][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-07 16:02:40.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-07 16:02:40.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.752][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-03-07 16:02:40.753][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-07 16:02:40.754][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.755][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.757][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-03-07 16:02:40.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-07 16:02:40.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.762][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-07 16:02:40.763][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-07 16:02:40.764][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.765][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.767][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-07 16:02:40.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-07 16:02:40.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.772][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:02:40.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:02:40.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.777][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:02:40.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:02:40.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.782][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:40.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:40.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.786][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:02:40.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:02:40.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:40.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:40.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.796][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:40.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:40.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.801][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:40.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:40.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:40.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:40.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.812][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:40.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:40.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.817][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:40.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:40.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-03-07 16:02:40.822][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 2528.
biodb.TRACE[2026-03-07 16:02:40.855][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-07 16:02:40.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-07 16:02:40.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.860][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-07 16:02:40.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-07 16:02:40.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.865][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-07 16:02:40.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-07 16:02:40.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.870][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-07 16:02:40.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-07 16:02:40.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.875][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:40.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:40.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.880][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:40.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:40.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.885][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-03-07 16:02:40.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-03-07 16:02:40.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.889][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-03-07 16:02:40.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-03-07 16:02:40.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.894][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-03-07 16:02:40.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-03-07 16:02:40.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.899][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-03-07 16:02:40.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-03-07 16:02:40.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:40.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:40.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.916][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:02:40.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:02:40.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:40.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:40.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.932][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:40.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:40.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.937][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:40.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:40.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.944][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:40.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:40.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:40.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:40.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:40.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:40.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.959][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:02:40.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:02:40.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.964][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:02:40.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:02:40.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.969][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:02:40.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:02:40.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:40.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:40.996][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:40.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:40.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:41.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:41.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.007][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:41.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:41.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.012][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:41.013][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:41.014][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.019][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:41.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:41.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.036][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:02:41.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:02:41.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.041][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:02:41.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:02:41.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.046][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:02:41.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:02:41.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.051][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:02:41.052][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:02:41.054][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.055][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.056][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:02:41.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:02:41.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.071][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-07 16:02:41.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-07 16:02:41.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.077][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-07 16:02:41.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-07 16:02:41.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.081][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-07 16:02:41.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-07 16:02:41.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.086][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-07 16:02:41.088][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-07 16:02:41.089][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.090][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.091][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-07 16:02:41.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-07 16:02:41.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.107][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-07 16:02:41.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-07 16:02:41.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.112][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-07 16:02:41.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-07 16:02:41.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.117][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-07 16:02:41.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-07 16:02:41.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.122][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-07 16:02:41.123][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-07 16:02:41.125][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.126][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.127][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-07 16:02:41.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-07 16:02:41.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.143][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-03-07 16:02:41.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:41.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.148][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:41.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:41.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.153][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:41.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:41.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.158][ef$get] Asked field names are: mass.
biodb.TRACE[2026-03-07 16:02:41.159][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:41.160][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.162][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.163][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-03-07 16:02:41.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:41.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.178][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:41.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:41.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.184][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:41.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:41.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.189][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:41.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:41.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.194][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:41.196][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:41.197][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.198][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.199][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:41.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:41.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.220][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:41.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:41.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.225][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:41.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:41.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.230][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:41.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:41.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.236][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:41.237][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:41.238][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.239][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.240][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:41.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:41.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.256][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-07 16:02:41.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-07 16:02:41.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.261][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-07 16:02:41.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-07 16:02:41.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.266][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-07 16:02:41.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-07 16:02:41.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.271][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-07 16:02:41.273][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-07 16:02:41.274][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.275][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.276][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-07 16:02:41.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-07 16:02:41.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.293][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-07 16:02:41.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-07 16:02:41.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.298][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-07 16:02:41.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-07 16:02:41.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.303][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-07 16:02:41.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-07 16:02:41.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.308][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-07 16:02:41.309][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-07 16:02:41.311][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.312][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.313][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-07 16:02:41.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-07 16:02:41.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.329][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:41.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:41.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.334][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:41.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:41.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.339][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:41.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:41.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.344][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:41.346][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:41.347][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.348][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.349][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:41.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:41.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.365][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-07 16:02:41.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-07 16:02:41.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.370][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-07 16:02:41.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-07 16:02:41.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.375][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-07 16:02:41.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-07 16:02:41.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.380][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-07 16:02:41.381][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-07 16:02:41.383][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.384][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.385][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-07 16:02:41.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-07 16:02:41.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.401][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-07 16:02:41.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-07 16:02:41.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.406][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-07 16:02:41.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-07 16:02:41.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.416][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-07 16:02:41.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-07 16:02:41.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.421][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-07 16:02:41.423][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-07 16:02:41.424][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.425][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.426][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-07 16:02:41.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-07 16:02:41.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.442][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-07 16:02:41.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-07 16:02:41.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.447][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-07 16:02:41.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-07 16:02:41.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.452][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-07 16:02:41.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-07 16:02:41.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.457][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-07 16:02:41.458][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-07 16:02:41.460][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.461][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.462][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-07 16:02:41.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-07 16:02:41.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.478][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:41.479][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:41.481][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.482][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.488][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-07 16:02:41.490][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-07 16:02:41.491][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.492][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.499][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-07 16:02:41.500][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-07 16:02:41.501][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.503][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.509][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-07 16:02:41.510][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-07 16:02:41.511][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.513][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.519][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-07 16:02:41.521][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-07 16:02:41.522][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.523][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.529][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:41.531][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:41.532][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.533][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.539][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:41.541][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:41.542][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.543][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.550][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:41.551][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:41.552][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.553][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.560][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-07 16:02:41.561][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-07 16:02:41.562][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.564][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.570][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-07 16:02:41.572][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-07 16:02:41.573][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.574][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.580][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-07 16:02:41.582][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-07 16:02:41.583][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.584][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.591][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-7799-content.xml".
biodb.DEBUG[2026-03-07 16:02:41.593][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-03-07 16:02:41.594][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-03-07 16:02:41.596][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-07 16:02:41.597][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-07 16:02:41.598][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-07 16:02:41.604][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:41.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:41.607][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:41.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-03-07 16:02:41.611][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:41.612][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:41.614][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.619][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:41.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:41.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.626][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-07 16:02:41.627][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-07 16:02:41.628][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.629][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.631][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-07 16:02:41.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-07 16:02:41.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.636][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-07 16:02:41.637][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-07 16:02:41.638][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.640][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.641][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-07 16:02:41.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-07 16:02:41.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.646][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-07 16:02:41.647][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-07 16:02:41.649][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.650][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.651][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-07 16:02:41.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-07 16:02:41.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.656][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-07 16:02:41.658][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-07 16:02:41.659][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.660][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.662][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-07 16:02:41.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-07 16:02:41.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.667][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:41.668][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:41.669][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.670][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.672][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:41.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:41.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.677][ef$get] Asked field names are: mass.
biodb.TRACE[2026-03-07 16:02:41.678][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:41.679][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.680][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.682][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-03-07 16:02:41.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:41.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.687][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:41.688][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:41.690][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.691][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.692][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:41.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:41.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.697][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-07 16:02:41.699][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-07 16:02:41.700][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.701][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.703][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-07 16:02:41.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-07 16:02:41.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.708][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-03-07 16:02:41.709][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-07 16:02:41.710][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.711][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.713][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-03-07 16:02:41.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-07 16:02:41.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.718][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-07 16:02:41.719][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-07 16:02:41.721][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.722][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.723][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-07 16:02:41.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-07 16:02:41.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:02:41.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:02:41.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:02:41.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:02:41.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:41.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:41.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.744][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:02:41.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:02:41.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.749][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:41.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:41.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:41.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:41.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:41.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:41.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:41.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:41.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.770][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:41.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:41.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.775][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:41.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:41.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-03-07 16:02:41.780][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 7799.
biodb.TRACE[2026-03-07 16:02:41.783][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-07 16:02:41.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-07 16:02:41.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.788][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-07 16:02:41.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-07 16:02:41.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.794][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-07 16:02:41.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-07 16:02:41.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.799][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-07 16:02:41.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-07 16:02:41.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.804][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:41.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:41.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.813][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:41.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:41.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.818][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-03-07 16:02:41.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-03-07 16:02:41.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.824][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-03-07 16:02:41.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-03-07 16:02:41.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.829][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-03-07 16:02:41.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-03-07 16:02:41.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.834][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-03-07 16:02:41.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-03-07 16:02:41.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:41.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:41.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.852][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:02:41.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:02:41.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.863][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:41.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:41.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.868][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:41.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:41.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:41.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:41.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.880][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:41.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:41.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:41.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:41.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:41.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:41.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.895][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:02:41.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:02:41.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.900][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:02:41.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:02:41.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.905][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:02:41.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:02:41.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:41.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:41.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.923][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:41.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:41.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.928][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:41.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:41.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.933][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:41.934][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:41.935][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.937][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.938][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:41.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:41.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.953][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-07 16:02:41.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-07 16:02:41.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.959][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-07 16:02:41.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-07 16:02:41.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.963][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-07 16:02:41.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-07 16:02:41.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.969][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-07 16:02:41.970][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-07 16:02:41.971][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.972][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.973][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-07 16:02:41.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-07 16:02:41.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.989][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-07 16:02:41.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-07 16:02:41.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:41.994][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-07 16:02:41.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-07 16:02:41.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:41.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.000][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-07 16:02:42.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-07 16:02:42.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.005][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-07 16:02:42.010][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-07 16:02:42.012][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.013][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.014][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-07 16:02:42.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-07 16:02:42.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.030][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-07 16:02:42.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-07 16:02:42.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.035][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-07 16:02:42.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-07 16:02:42.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.040][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-07 16:02:42.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-07 16:02:42.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.045][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-07 16:02:42.047][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-07 16:02:42.048][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.049][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.050][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-07 16:02:42.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-07 16:02:42.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.066][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:42.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:42.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.072][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:42.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:42.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.077][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:42.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:42.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.083][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:42.084][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:42.085][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.086][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.088][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:42.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:42.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.103][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:42.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:42.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.108][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:42.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:42.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.113][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:42.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:42.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.118][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:42.120][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:42.122][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.123][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.124][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:42.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:42.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.142][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:42.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:42.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.147][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:42.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:42.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.152][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:42.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:42.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.157][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:42.159][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:42.160][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.161][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.162][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:42.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:42.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.178][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-07 16:02:42.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-07 16:02:42.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.183][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-07 16:02:42.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-07 16:02:42.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.188][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-07 16:02:42.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-07 16:02:42.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.193][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-07 16:02:42.194][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-07 16:02:42.195][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.196][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.198][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-07 16:02:42.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-07 16:02:42.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.217][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-07 16:02:42.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-07 16:02:42.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.222][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-07 16:02:42.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-07 16:02:42.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.227][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-07 16:02:42.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-07 16:02:42.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.232][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-07 16:02:42.234][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-07 16:02:42.235][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.236][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.237][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-07 16:02:42.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-07 16:02:42.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.253][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-07 16:02:42.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-07 16:02:42.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.258][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-07 16:02:42.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-07 16:02:42.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.263][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-07 16:02:42.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-07 16:02:42.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.268][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-07 16:02:42.269][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-07 16:02:42.271][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.272][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.273][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-07 16:02:42.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-07 16:02:42.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.288][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-07 16:02:42.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-07 16:02:42.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.293][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-07 16:02:42.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-07 16:02:42.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.298][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-07 16:02:42.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-07 16:02:42.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.303][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-07 16:02:42.305][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-07 16:02:42.306][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.307][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.308][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-07 16:02:42.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-07 16:02:42.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.324][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:02:42.325][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:02:42.327][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.328][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.334][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-07 16:02:42.336][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-07 16:02:42.337][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.338][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.345][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-07 16:02:42.346][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-07 16:02:42.348][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.349][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.355][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-07 16:02:42.357][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-07 16:02:42.358][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.359][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.366][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-07 16:02:42.367][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-07 16:02:42.368][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.369][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.376][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:42.377][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-07 16:02:42.379][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.380][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.386][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:42.388][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-07 16:02:42.389][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.390][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.397][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:42.398][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:02:42.400][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.401][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.412][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-07 16:02:42.414][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-07 16:02:42.415][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.416][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.423][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-07 16:02:42.424][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-07 16:02:42.425][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.427][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:02:42.433][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-07 16:02:42.435][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-07 16:02:42.436][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:02:42.437][ef$get] fields variable is a list.
biodb.INFO [2026-03-07 16:02:42.448][biodb::testThat]
biodb.INFO [2026-03-07 16:02:42.449][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2026-03-07 16:02:42.450][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-07 16:02:42.451][biodb::testThat]
biodb.DEBUG[2026-03-07 16:02:42.454][private$loadEntries] Creating entries from ids [3]: "15440, 2528, 7799".
biodb.DEBUG[2026-03-07 16:02:42.588][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2026-03-07 16:02:42.592][cch$loadContents] Load 3 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2026-03-07 16:02:42.594][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2026-03-07 16:02:42.595][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2026-03-07 16:02:42.596][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2026-03-07 16:02:42.598][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2026-03-07 16:02:42.605][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-07 16:02:42.606][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-07 16:02:42.607][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-07 16:02:42.614][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:42.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:42.616][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:42.618][FUN] Functions in observer 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[2026-03-07 16:02:42.620][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
fscache.INFO [2026-03-07 16:02:42.648][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
sched.DEBUG[2026-03-07 16:02:42.649][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-07 16:02:42.650][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-07 16:02:42.652][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-07 16:02:49.104][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[2026-03-07 16:02:49.105][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-07 16:02:49.106][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[2026-03-07 16:02:49.108][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 [2026-03-07 16:02:49.527][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-07 16:02:49.529][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-07 16:02:49.530][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-07 16:02:49.532][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-07 16:02:49.923][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[2026-03-07 16:02:49.924][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-07 16:02:49.926][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[2026-03-07 16:02:49.927][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 [2026-03-07 16:02:50.337][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-07 16:02:50.338][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-07 16:02:50.339][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-07 16:02:50.341][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-07 16:02:50.731][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[2026-03-07 16:02:50.732][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-07 16:02:50.734][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[2026-03-07 16:02:50.735][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 [2026-03-07 16:02:51.334][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-07 16:02:51.336][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-07 16:02:51.337][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-07 16:02:51.338][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-07 16:02:51.730][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[2026-03-07 16:02:51.731][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-07 16:02:51.732][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[2026-03-07 16:02:51.734][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 [2026-03-07 16:02:52.143][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-07 16:02:52.145][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-07 16:02:52.146][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-07 16:02:52.148][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-07 16:02:52.539][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[2026-03-07 16:02:52.540][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-07 16:02:52.541][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[2026-03-07 16:02:52.543][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 [2026-03-07 16:02:52.954][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-07 16:02:52.956][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-07 16:02:52.957][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-07 16:02:52.959][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-07 16:02:53.349][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[2026-03-07 16:02:53.350][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-07 16:02:53.352][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[2026-03-07 16:02:53.353][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 [2026-03-07 16:02:53.762][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-07 16:02:53.763][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-07 16:02:53.765][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-07 16:02:53.766][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-07 16:02:54.157][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[2026-03-07 16:02:54.158][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-07 16:02:54.159][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[2026-03-07 16:02:54.160][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 [2026-03-07 16:02:54.573][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-07 16:02:54.575][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-07 16:02:54.581][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-07 16:02:54.593][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-07 16:02:54.983][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[2026-03-07 16:02:54.984][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-07 16:02:54.985][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[2026-03-07 16:02:54.987][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 [2026-03-07 16:02:55.400][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-07 16:02:55.401][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-07 16:02:55.402][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-07 16:02:55.404][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-07 16:02:55.797][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[2026-03-07 16:02:55.799][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-07 16:02:55.800][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[2026-03-07 16:02:55.801][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 [2026-03-07 16:02:56.217][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-07 16:02:56.219][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-07 16:02:56.221][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-07 16:02:56.224][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-07 16:02:56.618][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[2026-03-07 16:02:56.619][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-07 16:02:56.620][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[2026-03-07 16:02:56.622][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 [2026-03-07 16:02:57.030][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
biodb.DEBUG[2026-03-07 16:02:57.032][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-07 16:02:57.033][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-07 16:02:57.034][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-07 16:02:57.041][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:02:57.042][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:02:57.043][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:02:57.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2026-03-07 16:02:57.067][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
fscache.INFO [2026-03-07 16:02:57.108][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
sched.DEBUG[2026-03-07 16:02:57.129][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-07 16:02:57.130][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-07 16:02:57.132][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-07 16:02:57.524][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-07 16:02:57.525][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-07 16:02:57.526][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-07 16:02:57.527][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-07 16:02:57.937][private$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[2026-03-07 16:02:57.938][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-07 16:02:57.939][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-07 16:02:57.941][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-07 16:02:58.331][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-07 16:02:58.333][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-07 16:02:58.334][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-07 16:02:58.335][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-07 16:02:58.745][private$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[2026-03-07 16:02:58.746][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-07 16:02:58.747][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-07 16:02:58.749][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-07 16:02:59.140][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-07 16:02:59.142][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-07 16:02:59.143][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-07 16:02:59.144][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-07 16:02:59.575][private$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[2026-03-07 16:02:59.579][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-07 16:02:59.580][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-07 16:02:59.582][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-07 16:02:59.979][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-07 16:02:59.980][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-07 16:02:59.981][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-07 16:02:59.983][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-07 16:03:00.393][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-07 16:03:00.395][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-07 16:03:00.396][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-07 16:03:00.398][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-07 16:03:00.788][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-07 16:03:00.790][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-07 16:03:00.791][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-07 16:03:00.792][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-07 16:03:01.202][private$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[2026-03-07 16:03:01.203][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-07 16:03:01.204][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-07 16:03:01.206][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-07 16:03:01.597][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-07 16:03:01.598][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-07 16:03:01.600][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-07 16:03:01.601][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-07 16:03:02.010][private$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[2026-03-07 16:03:02.011][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-07 16:03:02.012][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-07 16:03:02.014][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-07 16:03:02.409][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-07 16:03:02.410][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-07 16:03:02.411][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-07 16:03:02.413][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-07 16:03:02.823][private$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[2026-03-07 16:03:02.824][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-07 16:03:02.826][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-07 16:03:02.827][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-07 16:03:03.223][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-07 16:03:03.225][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-07 16:03:03.226][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-07 16:03:03.227][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-07 16:03:03.641][private$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[2026-03-07 16:03:03.643][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-07 16:03:03.644][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-07 16:03:03.646][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-07 16:03:04.036][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-07 16:03:04.037][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-07 16:03:04.039][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-07 16:03:04.040][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-07 16:03:04.448][private$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[2026-03-07 16:03:04.450][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-07 16:03:04.451][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-07 16:03:04.453][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-07 16:03:04.844][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-07 16:03:04.846][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-07 16:03:04.848][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-07 16:03:04.850][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-07 16:03:05.260][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
biodb.DEBUG[2026-03-07 16:03:05.261][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-07 16:03:05.263][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-07 16:03:05.264][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-07 16:03:05.270][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:03:05.271][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:03:05.272][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:03:05.273][FUN] Functions in observer 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[2026-03-07 16:03:05.275][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
fscache.INFO [2026-03-07 16:03:05.278][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
sched.DEBUG[2026-03-07 16:03:05.279][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-07 16:03:05.280][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-07 16:03:05.282][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-07 16:03:05.673][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[2026-03-07 16:03:05.674][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-07 16:03:05.676][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[2026-03-07 16:03:05.677][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 [2026-03-07 16:03:06.092][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-07 16:03:06.094][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-07 16:03:06.095][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-07 16:03:06.097][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-07 16:03:06.489][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[2026-03-07 16:03:06.490][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-07 16:03:06.491][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[2026-03-07 16:03:06.493][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 [2026-03-07 16:03:06.902][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-07 16:03:06.903][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-07 16:03:06.904][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-07 16:03:06.906][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-07 16:03:07.300][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[2026-03-07 16:03:07.301][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-07 16:03:07.302][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[2026-03-07 16:03:07.304][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 [2026-03-07 16:03:07.715][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-07 16:03:07.717][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-07 16:03:07.718][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-07 16:03:07.720][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-07 16:03:08.112][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[2026-03-07 16:03:08.113][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-07 16:03:08.115][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[2026-03-07 16:03:08.116][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 [2026-03-07 16:03:08.526][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-07 16:03:08.528][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-07 16:03:08.529][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-07 16:03:08.530][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-07 16:03:08.922][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[2026-03-07 16:03:08.923][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-07 16:03:08.925][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[2026-03-07 16:03:08.926][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 [2026-03-07 16:03:09.534][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-07 16:03:09.535][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-07 16:03:09.536][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-07 16:03:09.538][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-07 16:03:09.929][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[2026-03-07 16:03:09.931][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-07 16:03:09.932][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[2026-03-07 16:03:09.933][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 [2026-03-07 16:03:10.583][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-07 16:03:10.585][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-07 16:03:10.586][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-07 16:03:10.587][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-07 16:03:10.979][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[2026-03-07 16:03:10.980][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-07 16:03:10.981][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[2026-03-07 16:03:10.982][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 [2026-03-07 16:03:11.391][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-07 16:03:11.392][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-07 16:03:11.394][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-07 16:03:11.395][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-07 16:03:11.793][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[2026-03-07 16:03:11.798][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-07 16:03:11.821][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[2026-03-07 16:03:11.823][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 [2026-03-07 16:03:12.233][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-07 16:03:12.234][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-07 16:03:12.236][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-07 16:03:12.237][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-07 16:03:12.629][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[2026-03-07 16:03:12.630][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-07 16:03:12.632][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[2026-03-07 16:03:12.633][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 [2026-03-07 16:03:13.047][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-07 16:03:13.048][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-07 16:03:13.050][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-07 16:03:13.052][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-07 16:03:13.442][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[2026-03-07 16:03:13.443][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-07 16:03:13.445][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[2026-03-07 16:03:13.446][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 [2026-03-07 16:03:13.860][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
fscache.INFO [2026-03-07 16:03:13.863][cch$saveContents] Save 3 contents to /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2026-03-07 16:03:13.866][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2026-03-07 16:03:13.869][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2026-03-07 16:03:13.871][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2026-03-07 16:03:13.874][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-07 16:03:13.875][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-07 16:03:13.877][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-07 16:03:13.888][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:03:13.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:03:13.892][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:03:13.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-03-07 16:03:13.896][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:03:13.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:03:13.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:03:13.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:03:13.904][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:03:13.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:03:13.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:03:13.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:03:13.912][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:03:13.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:03:13.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:03:13.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-03-07 16:03:13.919][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-07 16:03:13.920][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-07 16:03:13.921][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-07 16:03:13.928][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:03:13.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:03:13.930][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:03:13.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-03-07 16:03:13.934][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:03:13.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:03:13.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:03:13.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:03:13.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:03:13.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:03:13.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:03:13.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:03:13.945][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:03:13.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:03:13.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:03:13.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-03-07 16:03:13.952][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-07 16:03:13.954][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-07 16:03:13.956][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-07 16:03:13.963][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:03:13.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:03:13.965][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:03:13.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-03-07 16:03:13.969][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:03:13.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:03:13.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:03:13.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:03:13.974][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-07 16:03:13.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-07 16:03:13.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:03:13.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:03:13.979][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:03:13.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:03:13.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:03:13.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:03:13.984][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:03:13.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:03:13.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:03:13.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:03:13.989][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:03:13.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:03:13.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:03:13.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:03:13.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:03:13.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:03:13.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:03:13.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:03:13.999][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:03:14.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:03:14.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:03:14.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:03:14.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:03:14.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:03:14.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:03:14.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:03:14.008][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:03:14.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:03:14.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:03:14.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:03:14.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:03:14.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:03:14.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:03:14.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:03:14.018][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:03:14.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:03:14.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:03:14.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:03:14.023][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:03:14.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:03:14.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:03:14.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:03:14.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:03:14.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:03:14.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:03:14.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:03:14.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:03:14.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:03:14.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:03:14.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:03:14.038][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:03:14.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:03:14.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:03:14.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:03:14.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:03:14.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:03:14.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:03:14.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:03:14.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:03:14.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:03:14.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:03:14.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:03:14.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-07 16:03:14.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-07 16:03:14.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:03:14.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-03-07 16:03:14.065][self$createEntryFromContent] Accession numbers: NA, NA, NA.
biodb.DEBUG[2026-03-07 16:03:14.066][self$createEntryFromContent] Found 3 entry/ies without an accession number. Set it/them to NULL.
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-07 16:03:14.248][biodb::testThat]
biodb.INFO [2026-03-07 16:03:14.250][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2026-03-07 16:03:14.251][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-07 16:03:14.252][biodb::testThat]
biodb.TRACE[2026-03-07 16:03:14.256][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-07 16:03:14.258][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-07 16:03:14.259][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:03:14.260][ef$get] fields variable is a list.
biodb.DEBUG[2026-03-07 16:03:14.262][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 [2026-03-07 16:03:14.559][biodb::testThat]
biodb.INFO [2026-03-07 16:03:14.561][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2026-03-07 16:03:14.564][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-07 16:03:14.565][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-07 16:03:14.727][biodb::testThat]
biodb.INFO [2026-03-07 16:03:14.729][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2026-03-07 16:03:14.730][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-07 16:03:14.731][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-07 16:03:14.876][biodb::testThat]
biodb.INFO [2026-03-07 16:03:14.877][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2026-03-07 16:03:14.879][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-07 16:03:14.880][biodb::testThat]
biodb.INFO [2026-03-07 16:03:14.892][biodb::testThat]
biodb.INFO [2026-03-07 16:03:14.893][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2026-03-07 16:03:14.894][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-07 16:03:14.896][biodb::testThat]
biodb.INFO [2026-03-07 16:03:14.906][biodb::testThat]
biodb.INFO [2026-03-07 16:03:14.907][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2026-03-07 16:03:14.909][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-07 16:03:14.910][biodb::testThat]
biodb.DEBUG[2026-03-07 16:03:14.915][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2026-03-07 16:03:19.117][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2026-03-07 16:03:19.529][biodb::testThat]
biodb.INFO [2026-03-07 16:03:19.530][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2026-03-07 16:03:19.531][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-07 16:03:19.533][biodb::testThat]
biodb.TRACE[2026-03-07 16:03:19.560][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-07 16:03:19.562][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-07 16:03:19.563][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:03:19.564][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:03:19.565][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:03:19.567][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:03:19.568][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:03:19.569][ef$get] fields variable is a list.
biodb.INFO [2026-03-07 16:03:19.572][biodb::testThat]
biodb.INFO [2026-03-07 16:03:19.573][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2026-03-07 16:03:19.574][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-07 16:03:19.575][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-07 16:03:19.855][biodb::testThat]
biodb.INFO [2026-03-07 16:03:19.856][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2026-03-07 16:03:19.857][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-07 16:03:19.858][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-07 16:03:19.932][biodb::testThat]
biodb.INFO [2026-03-07 16:03:19.933][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2026-03-07 16:03:19.935][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-07 16:03:19.936][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-07 16:03:20.007][biodb::testThat]
biodb.INFO [2026-03-07 16:03:20.009][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2026-03-07 16:03:20.010][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-07 16:03:20.012][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.TRACE[2026-03-07 16:03:20.083][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-07 16:03:20.084][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-07 16:03:20.086][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:03:20.087][ef$get] fields variable is a list.
biodb.TRACE[2026-03-07 16:03:20.089][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:03:20.090][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-07 16:03:20.092][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-07 16:03:20.093][ef$get] fields variable is a list.
biodb.INFO [2026-03-07 16:03:20.095][biodb::testThat]
biodb.INFO [2026-03-07 16:03:20.097][biodb::testThat] Running test function  test.annotateMzValues_real_values  (" annotateMzValues() works correctly with real values. ").
biodb.INFO [2026-03-07 16:03:20.098][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-07 16:03:20.099][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-07 16:03:20.171][biodb::testThat]
biodb.INFO [2026-03-07 16:03:20.173][biodb::testThat] Running test function  test_annotateMzValues_additional_fields  (" Additional fields are accepted in annotateMzValues() ").
biodb.INFO [2026-03-07 16:03:20.174][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-07 16:03:20.176][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-07 16:03:20.244][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2026-03-07 16:03:20.246][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2026-03-07 16:03:20.247][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2026-03-07 16:03:20.248][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-07 16:03:20.249][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-07 16:03:20.250][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-07 16:03:20.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-07 16:03:20.252][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2026-03-07 16:03:20.254][FUN] Functions in observer 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:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbChebi_1.16.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck’
* using R version 4.5.2 (2025-10-31)
* using platform: x86_64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Monterey 12.7.6
* 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 ‘1.16.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking 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
  ‘/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/00check.log’
for details.

Installation output

biodbChebi.Rcheck/00install.out

* installing *source* package ‘biodbChebi’ ...
** this is package ‘biodbChebi’ version ‘1.16.0’
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbChebi)