Back to Long Tests report for BioC 3.22

This page was generated on 2026-01-24 23:55 -0500 (Sat, 24 Jan 2026).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.2 (2025-10-31) -- "[Not] Part in a Rumble" 4886
merida1macOS 12.7.6 Montereyx86_644.5.2 (2025-10-31) -- "[Not] Part in a Rumble" 4676
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: 2026-01-24 09:55 -0500 (Sat, 24 Jan 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: 2026-01-24 16:01:31 -0500 (Sat, 24 Jan 2026)
EndedAt: 2026-01-24 16:02:56 -0500 (Sat, 24 Jan 2026)
EllapsedTime: 84.9 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 [2026-01-24 16:02:17.600][biodb::testContext]
biodb.INFO [2026-01-24 16:02:17.604][biodb::testContext] ********************************************************************************
biodb.INFO [2026-01-24 16:02:17.605][biodb::testContext] Test context - Generic long tests
biodb.INFO [2026-01-24 16:02:17.606][biodb::testContext] ********************************************************************************
biodb.INFO [2026-01-24 16:02:17.607][biodb::testContext]
biodb.INFO [2026-01-24 16:02:17.614][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2026-01-24 16:02:17.616][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2026-01-24 16:02:17.626][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-01-24 16:02:17.627][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2026-01-24 16:02:17.629][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2026-01-24 16:02:17.630][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:17.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:17.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-24 16:02:17.634][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2026-01-24 16:02:17.658][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2026-01-24 16:02:17.659][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:17.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:17.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-24 16:02:17.663][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2026-01-24 16:02:17.664][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2026-01-24 16:02:17.665][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:17.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:17.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-24 16:02:17.669][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2026-01-24 16:02:17.670][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2026-01-24 16:02:17.671][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2026-01-24 16:02:17.672][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:17.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:17.675][FUN] Functions in observer BiodbConfig: [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[2026-01-24 16:02:17.676][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2026-01-24 16:02:17.677][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2026-01-24 16:02:17.678][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2026-01-24 16:02:17.680][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:17.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:17.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-24 16:02:17.683][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2026-01-24 16:02:17.684][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2026-01-24 16:02:17.685][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:17.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:17.688][FUN] Functions in observer BiodbConfig: [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[2026-01-24 16:02:17.689][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2026-01-24 16:02:17.690][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2026-01-24 16:02:17.691][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2026-01-24 16:02:17.693][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:17.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:17.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-24 16:02:17.698][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2026-01-24 16:02:17.699][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2026-01-24 16:02:17.701][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:17.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:17.703][FUN] Functions in observer BiodbConfig: [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[2026-01-24 16:02:17.704][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2026-01-24 16:02:17.705][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2026-01-24 16:02:17.707][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2026-01-24 16:02:17.708][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:17.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:17.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-24 16:02:17.712][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2026-01-24 16:02:17.713][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2026-01-24 16:02:17.714][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2026-01-24 16:02:17.716][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2026-01-24 16:02:17.717][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2026-01-24 16:02:17.719][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2026-01-24 16:02:17.720][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:17.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:17.722][FUN] Functions in observer BiodbConfig: [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[2026-01-24 16:02:17.724][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2026-01-24 16:02:17.725][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2026-01-24 16:02:17.726][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:17.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:17.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-24 16:02:17.730][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2026-01-24 16:02:17.732][self$set] Set key entries.sep to "|".
biodb.DEBUG[2026-01-24 16:02:17.733][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:17.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:17.736][FUN] Functions in observer BiodbConfig: [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[2026-01-24 16:02:17.737][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2026-01-24 16:02:17.738][self$set] Set key offline to FALSE.
biodb.DEBUG[2026-01-24 16:02:17.740][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:17.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:17.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-24 16:02:17.749][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2026-01-24 16:02:17.750][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2026-01-24 16:02:17.751][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2026-01-24 16:02:17.752][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:17.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:17.755][FUN] Functions in observer BiodbConfig: [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[2026-01-24 16:02:17.756][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2026-01-24 16:02:17.757][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2026-01-24 16:02:17.768][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2026-01-24 16:02:17.769][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:17.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:17.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-24 16:02:17.773][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2026-01-24 16:02:17.774][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2026-01-24 16:02:17.775][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2026-01-24 16:02:17.777][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:17.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:17.779][FUN] Functions in observer BiodbConfig: [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[2026-01-24 16:02:17.783][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2026-01-24 16:02:17.825][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-01-24 16:02:17.847][self$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[2026-01-24 16:02:17.849][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-01-24 16:02:17.850][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-01-24 16:02:17.851][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-01-24 16:02:17.852][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-01-24 16:02:17.854][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-01-24 16:02:17.855][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-01-24 16:02:17.856][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2026-01-24 16:02:17.857][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-01-24 16:02:17.859][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-01-24 16:02:17.860][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2026-01-24 16:02:17.861][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-01-24 16:02:17.863][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-01-24 16:02:17.864][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-01-24 16:02:17.865][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-01-24 16:02:17.865][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-01-24 16:02:17.865][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-01-24 16:02:17.865][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2026-01-24 16:02:17.865][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2026-01-24 16:02:17.866][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-01-24 16:02:17.868][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-24 16:02:17.869][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-24 16:02:17.870][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-01-24 16:02:17.871][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-24 16:02:17.872][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-24 16:02:17.874][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-01-24 16:02:17.875][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-01-24 16:02:17.876][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-01-24 16:02:17.877][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-01-24 16:02:17.878][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-01-24 16:02:17.879][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-01-24 16:02:17.881][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2026-01-24 16:02:17.883][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-01-24 16:02:17.884][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2026-01-24 16:02:17.886][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-01-24 16:02:17.887][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-01-24 16:02:17.888][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-01-24 16:02:17.890][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-01-24 16:02:17.891][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-01-24 16:02:17.892][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-01-24 16:02:17.894][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2026-01-24 16:02:17.895][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-01-24 16:02:17.897][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-01-24 16:02:17.898][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2026-01-24 16:02:17.899][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-01-24 16:02:17.900][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-01-24 16:02:17.902][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-01-24 16:02:17.903][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-01-24 16:02:17.903][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-01-24 16:02:17.903][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-01-24 16:02:17.903][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2026-01-24 16:02:17.903][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2026-01-24 16:02:17.904][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-01-24 16:02:17.905][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-24 16:02:17.906][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-24 16:02:17.908][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-01-24 16:02:17.909][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-24 16:02:17.910][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-24 16:02:17.911][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-01-24 16:02:17.913][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-01-24 16:02:17.914][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-01-24 16:02:17.915][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-01-24 16:02:17.916][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-01-24 16:02:17.917][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-01-24 16:02:17.919][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2026-01-24 16:02:17.921][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2026-01-24 16:02:17.922][self$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[2026-01-24 16:02:17.923][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-01-24 16:02:17.925][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-01-24 16:02:17.926][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-01-24 16:02:17.927][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-01-24 16:02:17.928][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-01-24 16:02:17.930][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-01-24 16:02:17.931][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2026-01-24 16:02:17.932][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-01-24 16:02:17.933][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2026-01-24 16:02:17.935][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2026-01-24 16:02:17.936][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-01-24 16:02:17.937][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-01-24 16:02:17.938][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-01-24 16:02:17.939][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2026-01-24 16:02:17.941][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-01-24 16:02:17.942][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-24 16:02:17.943][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-24 16:02:17.944][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-01-24 16:02:17.945][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-24 16:02:17.946][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-24 16:02:17.948][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-01-24 16:02:17.949][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-01-24 16:02:17.950][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-01-24 16:02:17.951][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-01-24 16:02:17.952][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-01-24 16:02:17.954][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-01-24 16:02:17.955][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2026-01-24 16:02:17.957][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2026-01-24 16:02:17.959][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2026-01-24 16:02:17.960][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-01-24 16:02:17.961][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-01-24 16:02:17.962][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-01-24 16:02:17.964][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-01-24 16:02:17.965][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-01-24 16:02:17.966][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-01-24 16:02:17.967][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2026-01-24 16:02:17.969][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-01-24 16:02:17.970][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2026-01-24 16:02:17.971][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2026-01-24 16:02:17.973][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-01-24 16:02:17.974][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-01-24 16:02:17.975][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-01-24 16:02:17.976][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2026-01-24 16:02:17.978][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-01-24 16:02:17.979][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-24 16:02:17.980][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-24 16:02:17.981][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-01-24 16:02:17.982][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-24 16:02:17.984][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-24 16:02:17.985][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-01-24 16:02:17.986][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-01-24 16:02:17.987][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-01-24 16:02:17.988][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-01-24 16:02:17.990][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-01-24 16:02:17.998][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-01-24 16:02:18.003][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-01-24 16:02:18.004][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:18.005][FUN] Functions in observer BiodbConfig: [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[2026-01-24 16:02:18.007][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:18.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:18.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:18.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:18.013][FUN] Functions in observer BiodbConfig: [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[2026-01-24 16:02:18.014][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:18.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:18.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:18.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:18.019][FUN] Functions in observer BiodbConfig: [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[2026-01-24 16:02:18.020][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:18.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:18.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:18.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:18.024][FUN] Functions in observer BiodbConfig: [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[2026-01-24 16:02:18.025][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:18.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:18.028][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:18.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:18.030][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-24 16:02:18.031][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:18.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:18.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:18.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:18.036][FUN] Functions in observer BiodbConfig: [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[2026-01-24 16:02:18.037][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:18.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:18.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:18.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:18.041][FUN] Functions in observer BiodbConfig: [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[2026-01-24 16:02:18.043][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:18.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:18.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:18.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:18.047][FUN] Functions in observer BiodbConfig: [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[2026-01-24 16:02:18.048][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:18.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:18.050][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:18.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:18.053][FUN] Functions in observer BiodbConfig: [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[2026-01-24 16:02:18.054][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:18.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:18.056][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:18.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:18.059][FUN] Functions in observer BiodbConfig: [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[2026-01-24 16:02:18.060][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:18.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:18.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:18.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:18.064][FUN] Functions in observer BiodbConfig: [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[2026-01-24 16:02:18.065][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:18.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:18.067][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:18.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:18.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-24 16:02:18.071][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:18.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:18.073][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:18.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:18.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-24 16:02:18.076][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:18.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:18.079][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:18.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:18.081][FUN] Functions in observer BiodbConfig: [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[2026-01-24 16:02:18.082][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:18.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:18.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:18.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:18.087][FUN] Functions in observer BiodbConfig: [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[2026-01-24 16:02:18.088][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:18.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:18.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:18.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:18.092][FUN] Functions in observer BiodbConfig: [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[2026-01-24 16:02:18.093][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:18.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:18.096][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:18.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:18.098][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-24 16:02:18.099][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2026-01-24 16:02:18.105][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2026-01-24 16:02:18.107][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2026-01-24 16:02:18.109][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2026-01-24 16:02:18.110][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2026-01-24 16:02:18.112][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2026-01-24 16:02:18.114][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2026-01-24 16:02:18.115][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2026-01-24 16:02:18.117][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2026-01-24 16:02:18.119][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2026-01-24 16:02:18.121][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2026-01-24 16:02:18.122][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2026-01-24 16:02:18.124][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2026-01-24 16:02:18.126][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2026-01-24 16:02:18.127][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2026-01-24 16:02:18.129][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2026-01-24 16:02:18.131][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2026-01-24 16:02:18.132][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2026-01-24 16:02:18.134][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2026-01-24 16:02:18.136][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2026-01-24 16:02:18.138][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2026-01-24 16:02:18.139][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2026-01-24 16:02:18.141][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2026-01-24 16:02:18.143][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2026-01-24 16:02:18.145][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2026-01-24 16:02:18.146][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2026-01-24 16:02:18.148][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2026-01-24 16:02:18.150][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2026-01-24 16:02:18.151][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2026-01-24 16:02:18.153][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2026-01-24 16:02:18.155][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2026-01-24 16:02:18.157][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2026-01-24 16:02:18.158][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2026-01-24 16:02:18.160][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2026-01-24 16:02:18.162][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2026-01-24 16:02:18.163][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2026-01-24 16:02:18.165][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2026-01-24 16:02:18.167][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2026-01-24 16:02:18.169][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2026-01-24 16:02:18.170][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2026-01-24 16:02:18.172][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2026-01-24 16:02:18.174][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2026-01-24 16:02:18.176][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2026-01-24 16:02:18.177][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2026-01-24 16:02:18.179][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2026-01-24 16:02:18.181][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2026-01-24 16:02:18.182][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2026-01-24 16:02:18.184][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2026-01-24 16:02:18.186][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2026-01-24 16:02:18.188][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2026-01-24 16:02:18.189][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2026-01-24 16:02:18.191][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2026-01-24 16:02:18.193][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2026-01-24 16:02:18.195][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2026-01-24 16:02:18.196][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2026-01-24 16:02:18.198][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2026-01-24 16:02:18.200][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2026-01-24 16:02:18.201][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2026-01-24 16:02:18.203][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2026-01-24 16:02:18.205][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2026-01-24 16:02:18.207][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2026-01-24 16:02:18.208][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2026-01-24 16:02:18.210][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2026-01-24 16:02:18.212][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2026-01-24 16:02:18.214][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2026-01-24 16:02:18.215][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2026-01-24 16:02:18.217][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2026-01-24 16:02:18.219][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2026-01-24 16:02:18.220][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2026-01-24 16:02:18.222][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2026-01-24 16:02:18.224][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2026-01-24 16:02:18.226][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2026-01-24 16:02:18.228][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2026-01-24 16:02:18.230][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2026-01-24 16:02:18.236][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2026-01-24 16:02:18.238][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2026-01-24 16:02:18.240][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2026-01-24 16:02:18.241][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2026-01-24 16:02:18.243][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2026-01-24 16:02:18.245][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2026-01-24 16:02:18.246][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2026-01-24 16:02:18.248][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2026-01-24 16:02:18.250][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2026-01-24 16:02:18.257][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2026-01-24 16:02:18.259][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2026-01-24 16:02:18.262][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-01-24 16:02:18.264][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:18.265][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:18.266][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:18.267][FUN] Functions in observer BiodbConfig: [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[2026-01-24 16:02:18.273][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:18.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-24 16:02:18.275][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-24 16:02:18.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:18.277][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:18.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:18.280][FUN] Functions in observer BiodbConfig: [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[2026-01-24 16:02:18.281][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:18.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-24 16:02:18.283][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-24 16:02:18.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:18.285][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:18.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:18.287][FUN] Functions in observer BiodbConfig: [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[2026-01-24 16:02:18.288][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:18.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-24 16:02:18.291][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-24 16:02:18.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:18.293][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:18.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:18.295][FUN] Functions in observer BiodbConfig: [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[2026-01-24 16:02:18.296][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:18.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-24 16:02:18.298][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-24 16:02:18.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:18.300][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:18.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:18.303][FUN] Functions in observer BiodbConfig: [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[2026-01-24 16:02:18.304][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:18.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-24 16:02:18.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-24 16:02:18.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:18.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:18.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:18.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-24 16:02:18.312][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:18.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-24 16:02:18.314][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-24 16:02:18.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:18.316][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:18.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:18.318][FUN] Functions in observer BiodbConfig: [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[2026-01-24 16:02:18.319][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:18.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-24 16:02:18.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-24 16:02:18.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:18.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:18.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:18.326][FUN] Functions in observer BiodbConfig: [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[2026-01-24 16:02:18.327][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:18.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-24 16:02:18.329][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-24 16:02:18.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:18.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:18.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:18.334][FUN] Functions in observer BiodbConfig: [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[2026-01-24 16:02:18.335][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:18.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-24 16:02:18.337][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-24 16:02:18.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:18.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:18.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:18.342][FUN] Functions in observer BiodbConfig: [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[2026-01-24 16:02:18.343][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:18.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-24 16:02:18.345][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-24 16:02:18.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:18.347][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:18.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:18.349][FUN] Functions in observer BiodbConfig: [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[2026-01-24 16:02:18.351][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:18.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-24 16:02:18.353][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-24 16:02:18.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:18.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:18.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:18.357][FUN] Functions in observer BiodbConfig: [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[2026-01-24 16:02:18.358][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:18.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-24 16:02:18.361][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-24 16:02:18.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:18.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:18.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:18.365][FUN] Functions in observer BiodbConfig: [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[2026-01-24 16:02:18.366][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:18.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-24 16:02:18.368][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-24 16:02:18.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:18.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:18.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:18.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-24 16:02:18.374][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:18.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-24 16:02:18.376][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-24 16:02:18.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:18.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:18.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:18.380][FUN] Functions in observer BiodbConfig: [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[2026-01-24 16:02:18.382][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:18.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-24 16:02:18.384][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-24 16:02:18.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:18.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:18.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:18.388][FUN] Functions in observer BiodbConfig: [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[2026-01-24 16:02:18.389][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-24 16:02:18.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-24 16:02:18.392][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-24 16:02:18.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:18.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:18.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:18.396][FUN] Functions in observer BiodbConfig: [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[2026-01-24 16:02:18.398][biodb$loadDefinitions] Load definitions from file "/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/definitions.yml".
biodb.DEBUG[2026-01-24 16:02:18.411][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2026-01-24 16:02:18.413][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-01-24 16:02:18.415][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2026-01-24 16:02:18.416][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-01-24 16:02:18.417][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-01-24 16:02:18.418][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-01-24 16:02:18.419][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-01-24 16:02:18.421][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2026-01-24 16:02:18.422][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2026-01-24 16:02:18.423][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2026-01-24 16:02:18.424][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-01-24 16:02:18.426][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-01-24 16:02:18.427][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2026-01-24 16:02:18.428][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-01-24 16:02:18.430][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2026-01-24 16:02:18.430][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2026-01-24 16:02:18.430][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2026-01-24 16:02:18.430][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2026-01-24 16:02:18.430][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2026-01-24 16:02:18.430][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2026-01-24 16:02:18.430][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2026-01-24 16:02:18.430][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2026-01-24 16:02:18.430][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2026-01-24 16:02:18.430][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2026-01-24 16:02:18.430][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2026-01-24 16:02:18.431][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2026-01-24 16:02:18.432][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-01-24 16:02:18.432][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-01-24 16:02:18.432][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-01-24 16:02:18.434][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2026-01-24 16:02:18.435][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-24 16:02:18.436][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-24 16:02:18.437][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-01-24 16:02:18.438][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-24 16:02:18.440][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-24 16:02:18.441][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-01-24 16:02:18.442][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2026-01-24 16:02:18.442][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2026-01-24 16:02:18.443][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-01-24 16:02:18.444][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-01-24 16:02:18.446][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2026-01-24 16:02:18.447][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2026-01-24 16:02:18.447][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2026-01-24 16:02:18.455][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2026-01-24 16:02:18.457][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2026-01-24 16:02:18.463][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2026-01-24 16:02:18.464][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2026-01-24 16:02:18.466][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2026-01-24 16:02:18.468][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2026-01-24 16:02:18.490][super$initialize] Initialize connector chebi.
biodb.DEBUG[2026-01-24 16:02:18.507][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2026-01-24 16:02:18.516][biodb::testThat]
biodb.INFO [2026-01-24 16:02:18.518][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2026-01-24 16:02:18.519][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-24 16:02:18.520][biodb::testThat]
biodb.TRACE[2026-01-24 16:02:18.524][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2026-01-24 16:02:18.526][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-01-24 16:02:18.530][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-01-24 16:02:18.539][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-24 16:02:18.540][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-24 16:02:18.541][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-24 16:02:18.559][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:18.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:18.561][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:18.563][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-01-24 16:02:18.572][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:18.574][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:18.575][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.576][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:18.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:18.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.600][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-24 16:02:18.601][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-24 16:02:18.602][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.603][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.639][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-24 16:02:18.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-24 16:02:18.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.645][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-24 16:02:18.646][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-24 16:02:18.648][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.649][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.650][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-24 16:02:18.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-24 16:02:18.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.656][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-24 16:02:18.657][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-24 16:02:18.658][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.659][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.661][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-24 16:02:18.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-24 16:02:18.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.666][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-24 16:02:18.668][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-24 16:02:18.669][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.670][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.672][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-24 16:02:18.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-24 16:02:18.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.677][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:18.678][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:18.680][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.681][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.682][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:18.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:18.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.688][ef$get] Asked field names are: mass.
biodb.TRACE[2026-01-24 16:02:18.689][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:18.690][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.692][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.693][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-01-24 16:02:18.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:18.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.699][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:18.700][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:18.702][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.703][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.715][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:18.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:18.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.720][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-24 16:02:18.721][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-24 16:02:18.722][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.724][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.725][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-24 16:02:18.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-24 16:02:18.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.731][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-01-24 16:02:18.732][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-24 16:02:18.733][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.735][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.736][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-01-24 16:02:18.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-24 16:02:18.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.742][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-24 16:02:18.743][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-24 16:02:18.745][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.746][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.748][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-24 16:02:18.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-24 16:02:18.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.753][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:18.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:18.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.758][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:18.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:18.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:18.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:18.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.768][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:18.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:18.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:18.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:18.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.778][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:18.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:18.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.783][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:18.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:18.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.832][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:18.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:18.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:18.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:18.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:18.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:18.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-01-24 16:02:18.847][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2026-01-24 16:02:18.850][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-24 16:02:18.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-24 16:02:18.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.855][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-24 16:02:18.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-24 16:02:18.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.928][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-24 16:02:18.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-24 16:02:18.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.933][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-24 16:02:18.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-24 16:02:18.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.938][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:18.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:18.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.943][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:18.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:18.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.948][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-01-24 16:02:18.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-01-24 16:02:18.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.953][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-01-24 16:02:18.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-01-24 16:02:18.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.958][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-01-24 16:02:18.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-01-24 16:02:18.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.964][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-01-24 16:02:18.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-01-24 16:02:18.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.972][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:18.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:18.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:18.993][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:18.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:18.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:18.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.004][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:19.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:19.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.009][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:19.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:19.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:19.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:19.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:19.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:19.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.026][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:19.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:19.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.031][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:19.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:19.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.037][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:19.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:19.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.042][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:19.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:19.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.047][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:19.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:19.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.061][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:19.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:19.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:19.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:19.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.071][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:19.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:19.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.076][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:19.078][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:19.079][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.080][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:19.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:19.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.097][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:19.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:19.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.102][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:19.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:19.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.107][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:19.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:19.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.112][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:19.114][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:19.115][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.116][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.117][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:19.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:19.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.137][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-24 16:02:19.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-24 16:02:19.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.142][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-24 16:02:19.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-24 16:02:19.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.147][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-24 16:02:19.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-24 16:02:19.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.152][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-24 16:02:19.153][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-24 16:02:19.154][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.156][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.157][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-24 16:02:19.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-24 16:02:19.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.172][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-24 16:02:19.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-24 16:02:19.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.177][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-24 16:02:19.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-24 16:02:19.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.182][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-24 16:02:19.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-24 16:02:19.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.187][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-24 16:02:19.189][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-24 16:02:19.190][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.191][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.192][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-24 16:02:19.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-24 16:02:19.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.208][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:19.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:19.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.213][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:19.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:19.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.218][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:19.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:19.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.223][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:19.224][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:19.225][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.227][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.228][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:19.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:19.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.244][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:19.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:19.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.249][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:19.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:19.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.254][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:19.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:19.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.259][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:19.260][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:19.261][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.262][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.264][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:19.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:19.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.279][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-24 16:02:19.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-24 16:02:19.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.284][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-24 16:02:19.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-24 16:02:19.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.289][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-24 16:02:19.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-24 16:02:19.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.294][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-24 16:02:19.296][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-24 16:02:19.297][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.298][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.299][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-24 16:02:19.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-24 16:02:19.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.320][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-24 16:02:19.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-24 16:02:19.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.325][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-24 16:02:19.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-24 16:02:19.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.330][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-24 16:02:19.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-24 16:02:19.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.335][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-24 16:02:19.337][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-24 16:02:19.338][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.339][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.340][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-24 16:02:19.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-24 16:02:19.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.356][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:19.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:19.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.362][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:19.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:19.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.367][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:19.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:19.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.372][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:19.374][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:19.375][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.376][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.377][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:19.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:19.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.393][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-24 16:02:19.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-24 16:02:19.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.399][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-24 16:02:19.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-24 16:02:19.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.404][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-24 16:02:19.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-24 16:02:19.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.409][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-24 16:02:19.410][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-24 16:02:19.412][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.413][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.414][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-24 16:02:19.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-24 16:02:19.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.429][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-24 16:02:19.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-24 16:02:19.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.435][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-24 16:02:19.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-24 16:02:19.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.439][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-24 16:02:19.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-24 16:02:19.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.445][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-24 16:02:19.446][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-24 16:02:19.447][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.448][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.449][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-24 16:02:19.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-24 16:02:19.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.465][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-24 16:02:19.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-24 16:02:19.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.470][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-24 16:02:19.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-24 16:02:19.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.475][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-24 16:02:19.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-24 16:02:19.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.479][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-24 16:02:19.481][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-24 16:02:19.482][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.483][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.484][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-24 16:02:19.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-24 16:02:19.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.500][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:19.502][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:19.503][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.504][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.510][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-24 16:02:19.512][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-24 16:02:19.517][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.518][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.525][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-24 16:02:19.526][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-24 16:02:19.528][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.529][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.535][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-24 16:02:19.537][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-24 16:02:19.538][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.539][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.545][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-24 16:02:19.547][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-24 16:02:19.548][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.549][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.556][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:19.557][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:19.558][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.559][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.566][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:19.567][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:19.569][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.570][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.576][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:19.578][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:19.579][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.580][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.587][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-24 16:02:19.588][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-24 16:02:19.589][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.590][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.597][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-24 16:02:19.599][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-24 16:02:19.600][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.601][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.607][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-24 16:02:19.609][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-24 16:02:19.610][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.611][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.634][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-2528-content.xml".
biodb.DEBUG[2026-01-24 16:02:19.682][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-01-24 16:02:19.684][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-01-24 16:02:19.686][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-24 16:02:19.687][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-24 16:02:19.688][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-24 16:02:19.695][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:19.696][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:19.698][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:19.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-01-24 16:02:19.701][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:19.703][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:19.708][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.709][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:19.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:19.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.738][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-24 16:02:19.740][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-24 16:02:19.741][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.742][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.744][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-24 16:02:19.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-24 16:02:19.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.749][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-24 16:02:19.750][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-24 16:02:19.752][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.753][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.755][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-24 16:02:19.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-24 16:02:19.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.760][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-24 16:02:19.761][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-24 16:02:19.762][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.763][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.765][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-24 16:02:19.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-24 16:02:19.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.770][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-24 16:02:19.771][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-24 16:02:19.772][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.773][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.775][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-24 16:02:19.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-24 16:02:19.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.780][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:19.781][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:19.782][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.783][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.785][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:19.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:19.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.790][ef$get] Asked field names are: mass.
biodb.TRACE[2026-01-24 16:02:19.791][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:19.792][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.794][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.795][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-01-24 16:02:19.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:19.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.800][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:19.801][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:19.803][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.804][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.805][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:19.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:19.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.810][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-24 16:02:19.812][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-24 16:02:19.813][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.814][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.816][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-24 16:02:19.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-24 16:02:19.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.821][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-01-24 16:02:19.822][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-24 16:02:19.823][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.824][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.826][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-01-24 16:02:19.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-24 16:02:19.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.831][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-24 16:02:19.832][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-24 16:02:19.833][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.834][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.836][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-24 16:02:19.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-24 16:02:19.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.841][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:19.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:19.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.846][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:19.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:19.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:19.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:19.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.855][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:19.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:19.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:19.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:19.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.865][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:19.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:19.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:19.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:19.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.875][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:19.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:19.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.880][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:19.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:19.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:19.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:19.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-01-24 16:02:19.894][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 2528.
biodb.TRACE[2026-01-24 16:02:19.921][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-24 16:02:19.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-24 16:02:19.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.926][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-24 16:02:19.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-24 16:02:19.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.931][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-24 16:02:19.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-24 16:02:19.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.936][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-24 16:02:19.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-24 16:02:19.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.941][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:19.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:19.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.946][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:19.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:19.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.951][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-01-24 16:02:19.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-01-24 16:02:19.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.956][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-01-24 16:02:19.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-01-24 16:02:19.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.961][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-01-24 16:02:19.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-01-24 16:02:19.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.966][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-01-24 16:02:19.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-01-24 16:02:19.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.972][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:19.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:19.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.983][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:19.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:19.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.993][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:19.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:19.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:19.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:19.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:19.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:20.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:20.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:20.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:20.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:20.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.015][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:20.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:20.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:20.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:20.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.025][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:20.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:20.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.030][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:20.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:20.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.036][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:20.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:20.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.063][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:20.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:20.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.069][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:20.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:20.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.074][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:20.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:20.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.084][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:20.086][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:20.087][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.088][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:20.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:20.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.106][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:20.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:20.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.111][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:20.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:20.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.116][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:20.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:20.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.122][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:20.123][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:20.124][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.126][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.127][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:20.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:20.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.143][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-24 16:02:20.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-24 16:02:20.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.148][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-24 16:02:20.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-24 16:02:20.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.153][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-24 16:02:20.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-24 16:02:20.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.159][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-24 16:02:20.160][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-24 16:02:20.161][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.162][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.164][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-24 16:02:20.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-24 16:02:20.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.180][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-24 16:02:20.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-24 16:02:20.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.185][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-24 16:02:20.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-24 16:02:20.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.190][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-24 16:02:20.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-24 16:02:20.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.195][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-24 16:02:20.197][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-24 16:02:20.198][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.199][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.200][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-24 16:02:20.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-24 16:02:20.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.217][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-01-24 16:02:20.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:20.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.222][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:20.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:20.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.227][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:20.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:20.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.232][ef$get] Asked field names are: mass.
biodb.TRACE[2026-01-24 16:02:20.234][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:20.235][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.236][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.237][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-01-24 16:02:20.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:20.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.254][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:20.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:20.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.259][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:20.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:20.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.264][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:20.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:20.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.270][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:20.271][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:20.272][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.274][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.275][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:20.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:20.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.297][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:20.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:20.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.303][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:20.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:20.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.308][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:20.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:20.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.313][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:20.315][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:20.316][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.318][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.319][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:20.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:20.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.335][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-24 16:02:20.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-24 16:02:20.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.341][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-24 16:02:20.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-24 16:02:20.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.346][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-24 16:02:20.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-24 16:02:20.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.351][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-24 16:02:20.352][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-24 16:02:20.353][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.354][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.356][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-24 16:02:20.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-24 16:02:20.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.371][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-24 16:02:20.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-24 16:02:20.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.377][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-24 16:02:20.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-24 16:02:20.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.382][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-24 16:02:20.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-24 16:02:20.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.387][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-24 16:02:20.388][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-24 16:02:20.389][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.391][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.392][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-24 16:02:20.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-24 16:02:20.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.408][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:20.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:20.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.414][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:20.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:20.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.419][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:20.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:20.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.424][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:20.425][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:20.427][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.428][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.429][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:20.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:20.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.445][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-24 16:02:20.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-24 16:02:20.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.450][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-24 16:02:20.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-24 16:02:20.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.456][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-24 16:02:20.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-24 16:02:20.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.461][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-24 16:02:20.462][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-24 16:02:20.463][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.464][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.466][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-24 16:02:20.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-24 16:02:20.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.486][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-24 16:02:20.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-24 16:02:20.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.491][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-24 16:02:20.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-24 16:02:20.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.496][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-24 16:02:20.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-24 16:02:20.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.501][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-24 16:02:20.503][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-24 16:02:20.504][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.505][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.506][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-24 16:02:20.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-24 16:02:20.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.522][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-24 16:02:20.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-24 16:02:20.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.528][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-24 16:02:20.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-24 16:02:20.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.533][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-24 16:02:20.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-24 16:02:20.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.538][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-24 16:02:20.539][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-24 16:02:20.540][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.542][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.543][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-24 16:02:20.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-24 16:02:20.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.559][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:20.560][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:20.562][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.563][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.569][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-24 16:02:20.570][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-24 16:02:20.571][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.573][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.579][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-24 16:02:20.580][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-24 16:02:20.581][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.582][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.589][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-24 16:02:20.590][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-24 16:02:20.591][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.592][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.598][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-24 16:02:20.600][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-24 16:02:20.601][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.602][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.608][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:20.609][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:20.611][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.612][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.618][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:20.619][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:20.621][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.622][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.628][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:20.629][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:20.631][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.632][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.638][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-24 16:02:20.640][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-24 16:02:20.641][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.642][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.648][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-24 16:02:20.650][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-24 16:02:20.651][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.652][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.658][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-24 16:02:20.660][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-24 16:02:20.661][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.662][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.668][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-7799-content.xml".
biodb.DEBUG[2026-01-24 16:02:20.670][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-01-24 16:02:20.671][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-01-24 16:02:20.673][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-24 16:02:20.674][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-24 16:02:20.675][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-24 16:02:20.682][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:20.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:20.688][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:20.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-01-24 16:02:20.691][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:20.693][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:20.694][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.695][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.697][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:20.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:20.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.701][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-24 16:02:20.703][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-24 16:02:20.704][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.705][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.707][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-24 16:02:20.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-24 16:02:20.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.712][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-24 16:02:20.713][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-24 16:02:20.714][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.715][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.717][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-24 16:02:20.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-24 16:02:20.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.722][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-24 16:02:20.723][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-24 16:02:20.724][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.725][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.727][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-24 16:02:20.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-24 16:02:20.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.732][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-24 16:02:20.733][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-24 16:02:20.734][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.735][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.737][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-24 16:02:20.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-24 16:02:20.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.742][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:20.743][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:20.744][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.745][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.747][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:20.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:20.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.752][ef$get] Asked field names are: mass.
biodb.TRACE[2026-01-24 16:02:20.753][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:20.754][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.755][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.757][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-01-24 16:02:20.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:20.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.762][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:20.763][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:20.764][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.766][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.767][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:20.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:20.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.772][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-24 16:02:20.773][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-24 16:02:20.774][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.776][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.777][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-24 16:02:20.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-24 16:02:20.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.782][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-01-24 16:02:20.784][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-24 16:02:20.785][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.786][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.787][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-01-24 16:02:20.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-24 16:02:20.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.792][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-24 16:02:20.794][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-24 16:02:20.795][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.796][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.798][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-24 16:02:20.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-24 16:02:20.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.803][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:20.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:20.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.807][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:20.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:20.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.812][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:20.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:20.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.817][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:20.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:20.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.822][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:20.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:20.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:20.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:20.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.832][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:20.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:20.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:20.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:20.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:20.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:20.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.846][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:20.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:20.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-01-24 16:02:20.851][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 7799.
biodb.TRACE[2026-01-24 16:02:20.854][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-24 16:02:20.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-24 16:02:20.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.859][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-24 16:02:20.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-24 16:02:20.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.864][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-24 16:02:20.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-24 16:02:20.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.873][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-24 16:02:20.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-24 16:02:20.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.878][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:20.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:20.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.883][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:20.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:20.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.888][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-01-24 16:02:20.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-01-24 16:02:20.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.893][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-01-24 16:02:20.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-01-24 16:02:20.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.898][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-01-24 16:02:20.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-01-24 16:02:20.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.903][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-01-24 16:02:20.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-01-24 16:02:20.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:20.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:20.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.920][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:20.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:20.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.932][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:20.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:20.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.938][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:20.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:20.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.944][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:20.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:20.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.952][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:20.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:20.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.957][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:20.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:20.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:20.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:20.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.967][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:20.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:20.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.972][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:20.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:20.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.977][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:20.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:20.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:20.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:20.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:20.996][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:20.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:20.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:20.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:21.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:21.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.006][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:21.007][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:21.008][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.009][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:21.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:21.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.027][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-24 16:02:21.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-24 16:02:21.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.032][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-24 16:02:21.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-24 16:02:21.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.037][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-24 16:02:21.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-24 16:02:21.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.042][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-24 16:02:21.044][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-24 16:02:21.045][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.046][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.047][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-24 16:02:21.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-24 16:02:21.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.063][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-24 16:02:21.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-24 16:02:21.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.069][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-24 16:02:21.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-24 16:02:21.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.078][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-24 16:02:21.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-24 16:02:21.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.083][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-24 16:02:21.085][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-24 16:02:21.086][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.087][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.089][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-24 16:02:21.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-24 16:02:21.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.106][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-24 16:02:21.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-24 16:02:21.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.111][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-24 16:02:21.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-24 16:02:21.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.116][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-24 16:02:21.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-24 16:02:21.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.121][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-24 16:02:21.123][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-24 16:02:21.124][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.125][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.126][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-24 16:02:21.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-24 16:02:21.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.142][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:21.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:21.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.147][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:21.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:21.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.152][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:21.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:21.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.157][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:21.159][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:21.160][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.161][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.162][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:21.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:21.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.178][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:21.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:21.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.183][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:21.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:21.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.188][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:21.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:21.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.193][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:21.194][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:21.195][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.196][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.198][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:21.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:21.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.213][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:21.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:21.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.218][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:21.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:21.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.223][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:21.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:21.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.228][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:21.229][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:21.230][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.232][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.233][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:21.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:21.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.248][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-24 16:02:21.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-24 16:02:21.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.253][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-24 16:02:21.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-24 16:02:21.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.258][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-24 16:02:21.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-24 16:02:21.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.263][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-24 16:02:21.269][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-24 16:02:21.270][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.272][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.273][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-24 16:02:21.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-24 16:02:21.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.288][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-24 16:02:21.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-24 16:02:21.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.293][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-24 16:02:21.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-24 16:02:21.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.298][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-24 16:02:21.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-24 16:02:21.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.303][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-24 16:02:21.304][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-24 16:02:21.306][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.307][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.308][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-24 16:02:21.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-24 16:02:21.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.323][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-24 16:02:21.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-24 16:02:21.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.328][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-24 16:02:21.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-24 16:02:21.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.334][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-24 16:02:21.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-24 16:02:21.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.339][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-24 16:02:21.340][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-24 16:02:21.341][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.343][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.344][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-24 16:02:21.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-24 16:02:21.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.359][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-24 16:02:21.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-24 16:02:21.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.364][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-24 16:02:21.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-24 16:02:21.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.369][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-24 16:02:21.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-24 16:02:21.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.374][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-24 16:02:21.375][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-24 16:02:21.377][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.379][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.381][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-24 16:02:21.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-24 16:02:21.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.399][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:21.401][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:21.402][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.403][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.410][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-24 16:02:21.411][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-24 16:02:21.412][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.414][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.420][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-24 16:02:21.421][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-24 16:02:21.423][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.424][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.430][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-24 16:02:21.432][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-24 16:02:21.433][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.434][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.441][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-24 16:02:21.442][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-24 16:02:21.443][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.445][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.451][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:21.453][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-24 16:02:21.454][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.455][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.462][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:21.463][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-24 16:02:21.465][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.466][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.477][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:21.479][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:21.480][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.481][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.487][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-24 16:02:21.489][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-24 16:02:21.490][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.491][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.498][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-24 16:02:21.499][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-24 16:02:21.501][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.502][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:21.508][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-24 16:02:21.510][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-24 16:02:21.511][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:21.512][ef$get] fields variable is a list.
biodb.INFO [2026-01-24 16:02:21.523][biodb::testThat]
biodb.INFO [2026-01-24 16:02:21.524][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2026-01-24 16:02:21.526][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-24 16:02:21.527][biodb::testThat]
biodb.DEBUG[2026-01-24 16:02:21.530][private$loadEntries] Creating entries from ids [3]: "15440, 2528, 7799".
biodb.DEBUG[2026-01-24 16:02:21.559][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2026-01-24 16:02:21.563][cch$loadContents] Load 3 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2026-01-24 16:02:21.565][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2026-01-24 16:02:21.566][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2026-01-24 16:02:21.568][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2026-01-24 16:02:21.569][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2026-01-24 16:02:21.576][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-24 16:02:21.577][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-24 16:02:21.579][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-24 16:02:21.585][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:21.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:21.587][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:21.588][FUN] Functions in observer 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[2026-01-24 16:02:21.591][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
fscache.INFO [2026-01-24 16:02:21.618][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
sched.DEBUG[2026-01-24 16:02:21.619][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-24 16:02:21.621][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-24 16:02:21.622][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-24 16:02:28.189][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[2026-01-24 16:02:28.190][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-24 16:02:28.191][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[2026-01-24 16:02:28.193][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 [2026-01-24 16:02:28.281][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-24 16:02:28.282][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-24 16:02:28.283][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-24 16:02:28.285][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-24 16:02:28.661][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[2026-01-24 16:02:28.662][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-24 16:02:28.663][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[2026-01-24 16:02:28.665][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 [2026-01-24 16:02:29.055][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-24 16:02:29.057][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-24 16:02:29.058][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-24 16:02:29.060][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-24 16:02:29.442][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[2026-01-24 16:02:29.443][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-24 16:02:29.444][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[2026-01-24 16:02:29.446][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 [2026-01-24 16:02:30.058][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-24 16:02:30.059][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-24 16:02:30.060][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-24 16:02:30.062][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-24 16:02:30.436][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[2026-01-24 16:02:30.437][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-24 16:02:30.439][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[2026-01-24 16:02:30.440][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 [2026-01-24 16:02:30.829][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-24 16:02:30.830][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-24 16:02:30.831][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-24 16:02:30.833][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-24 16:02:31.207][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[2026-01-24 16:02:31.209][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-24 16:02:31.210][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-24 16:02:31.211][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 [2026-01-24 16:02:31.597][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-24 16:02:31.598][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-24 16:02:31.600][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-24 16:02:31.601][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-24 16:02:31.979][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[2026-01-24 16:02:31.981][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-24 16:02:31.982][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[2026-01-24 16:02:31.983][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 [2026-01-24 16:02:32.372][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-24 16:02:32.387][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-24 16:02:32.389][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-24 16:02:32.390][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-24 16:02:32.764][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[2026-01-24 16:02:32.765][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-24 16:02:32.766][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[2026-01-24 16:02:32.768][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 [2026-01-24 16:02:33.159][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-24 16:02:33.161][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-24 16:02:33.162][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-24 16:02:33.164][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-24 16:02:33.537][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[2026-01-24 16:02:33.538][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-24 16:02:33.539][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[2026-01-24 16:02:33.541][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 [2026-01-24 16:02:33.946][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-24 16:02:33.948][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-24 16:02:33.950][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-24 16:02:33.953][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-24 16:02:34.330][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[2026-01-24 16:02:34.331][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-24 16:02:34.333][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-24 16:02:34.334][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 [2026-01-24 16:02:34.721][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-24 16:02:34.722][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-24 16:02:34.724][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-24 16:02:34.725][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-24 16:02:35.100][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[2026-01-24 16:02:35.101][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-24 16:02:35.102][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[2026-01-24 16:02:35.104][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 [2026-01-24 16:02:35.491][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
biodb.DEBUG[2026-01-24 16:02:35.492][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-24 16:02:35.494][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-24 16:02:35.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-24 16:02:35.501][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:35.503][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:35.504][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:35.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2026-01-24 16:02:35.528][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
fscache.INFO [2026-01-24 16:02:35.569][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
sched.DEBUG[2026-01-24 16:02:35.591][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-24 16:02:35.592][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-24 16:02:35.594][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-24 16:02:35.968][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-24 16:02:35.970][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-24 16:02:35.971][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-24 16:02:35.972][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-24 16:02:36.361][private$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[2026-01-24 16:02:36.362][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-24 16:02:36.363][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-24 16:02:36.365][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-24 16:02:36.739][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-24 16:02:36.740][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-24 16:02:36.741][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-24 16:02:36.754][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-24 16:02:37.143][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-24 16:02:37.145][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-24 16:02:37.146][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-24 16:02:37.147][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-24 16:02:37.522][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-24 16:02:37.523][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-24 16:02:37.525][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-24 16:02:37.526][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-24 16:02:37.912][private$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[2026-01-24 16:02:37.913][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-24 16:02:37.914][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-24 16:02:37.916][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-24 16:02:38.290][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-24 16:02:38.291][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-24 16:02:38.292][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-24 16:02:38.293][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-24 16:02:38.679][private$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[2026-01-24 16:02:38.681][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-24 16:02:38.682][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-24 16:02:38.684][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-24 16:02:39.064][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-24 16:02:39.065][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-24 16:02:39.066][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-24 16:02:39.067][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-24 16:02:39.455][private$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[2026-01-24 16:02:39.456][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-24 16:02:39.457][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-24 16:02:39.459][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-24 16:02:39.834][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-24 16:02:39.835][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-24 16:02:39.836][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-24 16:02:39.837][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-24 16:02:40.224][private$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[2026-01-24 16:02:40.226][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-24 16:02:40.227][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-24 16:02:40.228][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-24 16:02:40.605][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-24 16:02:40.606][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-24 16:02:40.608][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-24 16:02:40.609][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-24 16:02:41.173][private$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[2026-01-24 16:02:41.174][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-24 16:02:41.175][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-24 16:02:41.177][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-24 16:02:41.551][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-24 16:02:41.552][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-24 16:02:41.554][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-24 16:02:41.555][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-24 16:02:41.942][private$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[2026-01-24 16:02:41.943][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-24 16:02:41.944][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-24 16:02:41.946][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-24 16:02:42.325][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-24 16:02:42.326][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-24 16:02:42.327][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-24 16:02:42.328][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-24 16:02:42.817][private$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[2026-01-24 16:02:42.819][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-24 16:02:42.821][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-24 16:02:42.824][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-24 16:02:43.201][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-24 16:02:43.203][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-24 16:02:43.204][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-24 16:02:43.205][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-24 16:02:43.605][private$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[2026-01-24 16:02:43.607][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-24 16:02:43.608][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-24 16:02:43.609][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-24 16:02:43.615][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:43.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:43.618][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:43.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2026-01-24 16:02:43.620][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
fscache.INFO [2026-01-24 16:02:43.623][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
sched.DEBUG[2026-01-24 16:02:43.624][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-24 16:02:43.625][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-24 16:02:43.627][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-24 16:02:44.002][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[2026-01-24 16:02:44.003][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-24 16:02:44.004][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[2026-01-24 16:02:44.005][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 [2026-01-24 16:02:44.395][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-24 16:02:44.397][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-24 16:02:44.398][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-24 16:02:44.400][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-24 16:02:44.773][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[2026-01-24 16:02:44.774][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-24 16:02:44.776][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[2026-01-24 16:02:44.777][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 [2026-01-24 16:02:45.164][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-24 16:02:45.165][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-24 16:02:45.166][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-24 16:02:45.168][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-24 16:02:45.543][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[2026-01-24 16:02:45.545][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-24 16:02:45.546][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[2026-01-24 16:02:45.547][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 [2026-01-24 16:02:45.933][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-24 16:02:45.934][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-24 16:02:45.936][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-24 16:02:45.937][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-24 16:02:46.311][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[2026-01-24 16:02:46.313][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-24 16:02:46.314][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[2026-01-24 16:02:46.315][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 [2026-01-24 16:02:46.703][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-24 16:02:46.704][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-24 16:02:46.706][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-24 16:02:46.707][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-24 16:02:47.087][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[2026-01-24 16:02:47.088][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-24 16:02:47.089][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[2026-01-24 16:02:47.091][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 [2026-01-24 16:02:47.476][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-24 16:02:47.478][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-24 16:02:47.479][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-24 16:02:47.481][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-24 16:02:47.855][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[2026-01-24 16:02:47.856][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-24 16:02:47.857][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[2026-01-24 16:02:47.858][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 [2026-01-24 16:02:48.247][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-24 16:02:48.248][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-24 16:02:48.250][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-24 16:02:48.251][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-24 16:02:48.649][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[2026-01-24 16:02:48.650][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-24 16:02:48.651][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[2026-01-24 16:02:48.652][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 [2026-01-24 16:02:49.038][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-24 16:02:49.039][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-24 16:02:49.041][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-24 16:02:49.042][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-24 16:02:49.416][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[2026-01-24 16:02:49.417][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-24 16:02:49.418][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[2026-01-24 16:02:49.420][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 [2026-01-24 16:02:49.808][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-24 16:02:49.809][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-24 16:02:49.811][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-24 16:02:49.812][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-24 16:02:50.189][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[2026-01-24 16:02:50.190][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-24 16:02:50.191][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[2026-01-24 16:02:50.192][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 [2026-01-24 16:02:50.581][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-24 16:02:50.582][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-24 16:02:50.583][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-24 16:02:50.585][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-24 16:02:50.961][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[2026-01-24 16:02:50.962][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-24 16:02:50.963][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[2026-01-24 16:02:50.964][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 [2026-01-24 16:02:51.350][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
fscache.INFO [2026-01-24 16:02:51.352][cch$saveContents] Save 3 contents to /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2026-01-24 16:02:51.354][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2026-01-24 16:02:51.355][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2026-01-24 16:02:51.357][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2026-01-24 16:02:51.359][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-24 16:02:51.360][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-24 16:02:51.361][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-24 16:02:51.367][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:51.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:51.370][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:51.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-01-24 16:02:51.373][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:51.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:51.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:51.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:51.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:51.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:51.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:51.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:51.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:51.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:51.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:51.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-01-24 16:02:51.389][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-24 16:02:51.390][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-24 16:02:51.391][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-24 16:02:51.397][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:51.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:51.400][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:51.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-01-24 16:02:51.403][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:51.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:51.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:51.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:51.408][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:51.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:51.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:51.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:51.413][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:51.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:51.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:51.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-01-24 16:02:51.418][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-24 16:02:51.419][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-24 16:02:51.421][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-24 16:02:51.427][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:51.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:51.429][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:51.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-01-24 16:02:51.433][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:51.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:51.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:51.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:51.438][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-24 16:02:51.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-24 16:02:51.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:51.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:51.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:51.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:51.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:51.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:51.448][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:51.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:51.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:51.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:51.453][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:51.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:51.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:51.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:51.458][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:51.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:51.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:51.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:51.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:51.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:51.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:51.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:51.468][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:51.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:51.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:51.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:51.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:51.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:51.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:51.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:51.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:51.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:51.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:51.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:51.484][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:51.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:51.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:51.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:51.489][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:51.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:51.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:51.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:51.505][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:51.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:51.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:51.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:51.510][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:51.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:51.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:51.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:51.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:51.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:51.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:51.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:51.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:51.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:51.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:51.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:51.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:51.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:51.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:51.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:51.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-24 16:02:51.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-24 16:02:51.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:51.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-01-24 16:02:51.537][self$createEntryFromContent] Accession numbers: NA, NA, NA.
biodb.DEBUG[2026-01-24 16:02:51.538][self$createEntryFromContent] Found 3 entry/ies without an accession number. Set it/them to NULL.
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-24 16:02:51.720][biodb::testThat]
biodb.INFO [2026-01-24 16:02:51.722][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2026-01-24 16:02:51.723][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-24 16:02:51.724][biodb::testThat]
biodb.TRACE[2026-01-24 16:02:51.728][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-24 16:02:51.730][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-24 16:02:51.731][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:51.732][ef$get] fields variable is a list.
biodb.DEBUG[2026-01-24 16:02:51.734][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 [2026-01-24 16:02:52.117][biodb::testThat]
biodb.INFO [2026-01-24 16:02:52.118][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2026-01-24 16:02:52.119][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-24 16:02:52.120][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-24 16:02:52.277][biodb::testThat]
biodb.INFO [2026-01-24 16:02:52.278][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2026-01-24 16:02:52.280][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-24 16:02:52.282][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-24 16:02:52.451][biodb::testThat]
biodb.INFO [2026-01-24 16:02:52.452][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2026-01-24 16:02:52.453][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-24 16:02:52.454][biodb::testThat]
biodb.INFO [2026-01-24 16:02:52.466][biodb::testThat]
biodb.INFO [2026-01-24 16:02:52.467][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2026-01-24 16:02:52.468][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-24 16:02:52.470][biodb::testThat]
biodb.INFO [2026-01-24 16:02:52.480][biodb::testThat]
biodb.INFO [2026-01-24 16:02:52.481][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2026-01-24 16:02:52.482][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-24 16:02:52.483][biodb::testThat]
biodb.DEBUG[2026-01-24 16:02:52.488][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2026-01-24 16:02:53.050][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2026-01-24 16:02:53.442][biodb::testThat]
biodb.INFO [2026-01-24 16:02:53.444][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2026-01-24 16:02:53.445][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-24 16:02:53.446][biodb::testThat]
biodb.TRACE[2026-01-24 16:02:53.617][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-24 16:02:53.619][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-24 16:02:53.620][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:53.621][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:53.622][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:53.624][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:53.625][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:53.626][ef$get] fields variable is a list.
biodb.INFO [2026-01-24 16:02:53.628][biodb::testThat]
biodb.INFO [2026-01-24 16:02:53.629][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2026-01-24 16:02:53.631][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-24 16:02:53.632][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-24 16:02:53.771][biodb::testThat]
biodb.INFO [2026-01-24 16:02:53.772][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2026-01-24 16:02:53.774][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-24 16:02:53.775][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-24 16:02:53.847][biodb::testThat]
biodb.INFO [2026-01-24 16:02:53.848][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2026-01-24 16:02:53.850][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-24 16:02:53.851][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-24 16:02:53.922][biodb::testThat]
biodb.INFO [2026-01-24 16:02:53.924][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2026-01-24 16:02:53.925][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-24 16:02:53.927][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.TRACE[2026-01-24 16:02:53.999][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-24 16:02:54.001][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-24 16:02:54.002][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:54.004][ef$get] fields variable is a list.
biodb.TRACE[2026-01-24 16:02:54.005][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:54.007][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-24 16:02:54.008][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-24 16:02:54.010][ef$get] fields variable is a list.
biodb.INFO [2026-01-24 16:02:54.012][biodb::testThat]
biodb.INFO [2026-01-24 16:02:54.013][biodb::testThat] Running test function  test.annotateMzValues_real_values  (" annotateMzValues() works correctly with real values. ").
biodb.INFO [2026-01-24 16:02:54.015][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-24 16:02:54.016][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-24 16:02:54.089][biodb::testThat]
biodb.INFO [2026-01-24 16:02:54.091][biodb::testThat] Running test function  test_annotateMzValues_additional_fields  (" Additional fields are accepted in annotateMzValues() ").
biodb.INFO [2026-01-24 16:02:54.092][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-24 16:02:54.094][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-24 16:02:54.161][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2026-01-24 16:02:54.163][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2026-01-24 16:02:54.164][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2026-01-24 16:02:54.165][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-24 16:02:54.166][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-24 16:02:54.167][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-24 16:02:54.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-24 16:02:54.169][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2026-01-24 16:02:54.171][FUN] Functions in observer 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)