Back to Long Tests report for BioC 3.22

This page was generated on 2025-12-13 23:55 -0500 (Sat, 13 Dec 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.2 (2025-10-31) -- "[Not] Part in a Rumble" 4882
merida1macOS 12.7.6 Montereyx86_644.5.2 (2025-10-31) -- "[Not] Part in a Rumble" 4673
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: 2025-12-13 09:55 -0500 (Sat, 13 Dec 2025)
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: 2025-12-13 16:01:59 -0500 (Sat, 13 Dec 2025)
EndedAt: 2025-12-13 16:03:19 -0500 (Sat, 13 Dec 2025)
EllapsedTime: 80.3 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 [2025-12-13 16:02:46.362][biodb::testContext]
biodb.INFO [2025-12-13 16:02:46.366][biodb::testContext] ********************************************************************************
biodb.INFO [2025-12-13 16:02:46.367][biodb::testContext] Test context - Generic long tests
biodb.INFO [2025-12-13 16:02:46.369][biodb::testContext] ********************************************************************************
biodb.INFO [2025-12-13 16:02:46.370][biodb::testContext]
biodb.INFO [2025-12-13 16:02:46.376][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2025-12-13 16:02:46.380][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-12-13 16:02:46.388][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-12-13 16:02:46.389][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-12-13 16:02:46.391][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-12-13 16:02:46.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:46.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:46.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-13 16:02:46.396][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-12-13 16:02:46.420][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-12-13 16:02:46.421][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:46.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:46.423][FUN] Functions in observer BiodbConfig: [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[2025-12-13 16:02:46.425][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-12-13 16:02:46.426][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-12-13 16:02:46.427][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:46.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:46.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-13 16:02:46.431][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-12-13 16:02:46.432][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-12-13 16:02:46.433][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-12-13 16:02:46.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:46.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:46.437][FUN] Functions in observer BiodbConfig: [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[2025-12-13 16:02:46.438][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-12-13 16:02:46.440][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-12-13 16:02:46.451][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-12-13 16:02:46.453][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:46.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:46.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-13 16:02:46.456][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-12-13 16:02:46.457][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-12-13 16:02:46.459][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:46.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:46.461][FUN] Functions in observer BiodbConfig: [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[2025-12-13 16:02:46.462][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-12-13 16:02:46.463][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-12-13 16:02:46.465][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-12-13 16:02:46.466][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:46.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:46.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-13 16:02:46.469][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-12-13 16:02:46.471][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-12-13 16:02:46.472][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:46.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:46.474][FUN] Functions in observer BiodbConfig: [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[2025-12-13 16:02:46.475][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-12-13 16:02:46.477][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-12-13 16:02:46.478][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-12-13 16:02:46.480][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:46.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:46.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-13 16:02:46.483][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-12-13 16:02:46.485][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-12-13 16:02:46.486][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-12-13 16:02:46.488][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-12-13 16:02:46.489][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-12-13 16:02:46.491][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-12-13 16:02:46.492][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:46.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:46.494][FUN] Functions in observer BiodbConfig: [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[2025-12-13 16:02:46.495][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-12-13 16:02:46.497][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-12-13 16:02:46.498][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:46.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:46.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-13 16:02:46.501][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-12-13 16:02:46.503][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-12-13 16:02:46.504][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:46.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:46.506][FUN] Functions in observer BiodbConfig: [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[2025-12-13 16:02:46.507][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-12-13 16:02:46.508][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-12-13 16:02:46.510][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:46.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:46.512][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-13 16:02:46.513][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-12-13 16:02:46.515][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-12-13 16:02:46.516][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-12-13 16:02:46.517][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:46.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:46.519][FUN] Functions in observer BiodbConfig: [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[2025-12-13 16:02:46.520][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-12-13 16:02:46.522][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-12-13 16:02:46.532][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-12-13 16:02:46.534][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:46.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:46.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-13 16:02:46.537][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-12-13 16:02:46.539][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-12-13 16:02:46.540][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-12-13 16:02:46.541][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:46.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:46.543][FUN] Functions in observer BiodbConfig: [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[2025-12-13 16:02:46.548][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-12-13 16:02:46.592][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-12-13 16:02:46.614][self$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[2025-12-13 16:02:46.615][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-12-13 16:02:46.617][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-12-13 16:02:46.618][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-12-13 16:02:46.619][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-12-13 16:02:46.621][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-12-13 16:02:46.622][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-12-13 16:02:46.623][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-12-13 16:02:46.624][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-12-13 16:02:46.626][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-12-13 16:02:46.627][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-12-13 16:02:46.628][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-12-13 16:02:46.630][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-12-13 16:02:46.631][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-12-13 16:02:46.632][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-12-13 16:02:46.632][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-12-13 16:02:46.632][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-12-13 16:02:46.632][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-12-13 16:02:46.632][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-12-13 16:02:46.634][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-12-13 16:02:46.635][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-12-13 16:02:46.636][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-12-13 16:02:46.637][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-12-13 16:02:46.638][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-12-13 16:02:46.640][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-12-13 16:02:46.641][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-12-13 16:02:46.642][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-12-13 16:02:46.643][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-12-13 16:02:46.644][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-12-13 16:02:46.646][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-12-13 16:02:46.647][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-12-13 16:02:46.648][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-12-13 16:02:46.651][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-12-13 16:02:46.652][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-12-13 16:02:46.653][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-12-13 16:02:46.655][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-12-13 16:02:46.656][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-12-13 16:02:46.657][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-12-13 16:02:46.658][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-12-13 16:02:46.660][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-12-13 16:02:46.661][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-12-13 16:02:46.662][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-12-13 16:02:46.664][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-12-13 16:02:46.665][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-12-13 16:02:46.666][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-12-13 16:02:46.667][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-12-13 16:02:46.669][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-12-13 16:02:46.670][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-12-13 16:02:46.670][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-12-13 16:02:46.670][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-12-13 16:02:46.670][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-12-13 16:02:46.670][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-12-13 16:02:46.671][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-12-13 16:02:46.673][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-12-13 16:02:46.674][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-12-13 16:02:46.675][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-12-13 16:02:46.681][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-12-13 16:02:46.682][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-12-13 16:02:46.683][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-12-13 16:02:46.684][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-12-13 16:02:46.686][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-12-13 16:02:46.687][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-12-13 16:02:46.688][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-12-13 16:02:46.689][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-12-13 16:02:46.691][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-12-13 16:02:46.693][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-12-13 16:02:46.694][self$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[2025-12-13 16:02:46.695][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-12-13 16:02:46.697][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-12-13 16:02:46.698][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-12-13 16:02:46.699][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-12-13 16:02:46.700][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-12-13 16:02:46.702][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-12-13 16:02:46.703][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-12-13 16:02:46.704][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-12-13 16:02:46.705][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-12-13 16:02:46.707][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-12-13 16:02:46.708][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-12-13 16:02:46.709][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-12-13 16:02:46.710][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-12-13 16:02:46.712][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-12-13 16:02:46.713][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-12-13 16:02:46.714][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-12-13 16:02:46.715][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-12-13 16:02:46.717][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-12-13 16:02:46.718][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-12-13 16:02:46.719][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-12-13 16:02:46.720][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-12-13 16:02:46.721][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-12-13 16:02:46.723][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-12-13 16:02:46.724][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-12-13 16:02:46.725][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-12-13 16:02:46.726][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-12-13 16:02:46.728][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-12-13 16:02:46.730][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-12-13 16:02:46.731][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-12-13 16:02:46.732][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-12-13 16:02:46.734][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-12-13 16:02:46.735][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-12-13 16:02:46.736][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-12-13 16:02:46.737][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-12-13 16:02:46.739][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-12-13 16:02:46.740][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-12-13 16:02:46.741][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-12-13 16:02:46.742][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-12-13 16:02:46.744][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-12-13 16:02:46.745][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-12-13 16:02:46.746][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-12-13 16:02:46.747][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-12-13 16:02:46.749][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-12-13 16:02:46.750][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-12-13 16:02:46.751][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-12-13 16:02:46.752][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-12-13 16:02:46.754][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-12-13 16:02:46.755][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-12-13 16:02:46.756][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-12-13 16:02:46.757][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-12-13 16:02:46.758][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-12-13 16:02:46.760][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-12-13 16:02:46.761][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-12-13 16:02:46.762][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-12-13 16:02:46.763][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-12-13 16:02:46.767][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-12-13 16:02:46.768][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:46.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-13 16:02:46.771][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:46.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:46.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:46.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:46.775][FUN] Functions in observer BiodbConfig: [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[2025-12-13 16:02:46.777][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:46.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:46.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:46.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:46.781][FUN] Functions in observer BiodbConfig: [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[2025-12-13 16:02:46.782][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:46.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:46.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:46.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:46.787][FUN] Functions in observer BiodbConfig: [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[2025-12-13 16:02:46.788][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:46.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:46.790][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:46.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:46.793][FUN] Functions in observer BiodbConfig: [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[2025-12-13 16:02:46.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:46.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:46.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:46.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:46.798][FUN] Functions in observer BiodbConfig: [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[2025-12-13 16:02:46.799][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:46.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:46.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:46.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:46.804][FUN] Functions in observer BiodbConfig: [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[2025-12-13 16:02:46.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:46.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:46.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:46.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:46.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-13 16:02:46.811][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:46.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:46.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:46.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:46.815][FUN] Functions in observer BiodbConfig: [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[2025-12-13 16:02:46.817][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:46.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:46.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:46.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:46.821][FUN] Functions in observer BiodbConfig: [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[2025-12-13 16:02:46.822][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:46.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:46.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:46.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:46.827][FUN] Functions in observer BiodbConfig: [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[2025-12-13 16:02:46.828][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:46.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:46.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:46.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:46.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-13 16:02:46.834][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:46.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:46.836][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:46.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:46.838][FUN] Functions in observer BiodbConfig: [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[2025-12-13 16:02:46.839][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:46.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:46.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:46.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:46.844][FUN] Functions in observer BiodbConfig: [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[2025-12-13 16:02:46.845][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:46.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:46.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:46.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:46.850][FUN] Functions in observer BiodbConfig: [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[2025-12-13 16:02:46.851][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:46.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:46.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:46.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:46.855][FUN] Functions in observer BiodbConfig: [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[2025-12-13 16:02:46.856][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:46.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:46.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:46.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:46.861][FUN] Functions in observer BiodbConfig: [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[2025-12-13 16:02:46.862][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-12-13 16:02:46.867][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-12-13 16:02:46.869][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-12-13 16:02:46.870][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-12-13 16:02:46.872][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-12-13 16:02:46.874][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-12-13 16:02:46.876][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-12-13 16:02:46.877][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-12-13 16:02:46.879][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-12-13 16:02:46.881][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-12-13 16:02:46.882][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-12-13 16:02:46.884][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-12-13 16:02:46.886][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-12-13 16:02:46.888][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-12-13 16:02:46.889][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-12-13 16:02:46.891][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-12-13 16:02:46.897][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-12-13 16:02:46.899][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-12-13 16:02:46.900][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-12-13 16:02:46.902][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-12-13 16:02:46.904][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-12-13 16:02:46.906][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-12-13 16:02:46.907][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-12-13 16:02:46.909][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-12-13 16:02:46.911][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-12-13 16:02:46.912][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-12-13 16:02:46.914][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-12-13 16:02:46.916][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-12-13 16:02:46.918][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-12-13 16:02:46.919][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-12-13 16:02:46.921][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-12-13 16:02:46.923][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-12-13 16:02:46.925][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-12-13 16:02:46.926][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-12-13 16:02:46.928][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-12-13 16:02:46.930][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-12-13 16:02:46.931][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-12-13 16:02:46.933][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-12-13 16:02:46.935][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-12-13 16:02:46.937][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-12-13 16:02:46.938][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-12-13 16:02:46.940][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-12-13 16:02:46.942][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-12-13 16:02:46.943][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-12-13 16:02:46.945][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-12-13 16:02:46.947][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-12-13 16:02:46.949][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-12-13 16:02:46.950][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-12-13 16:02:46.952][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-12-13 16:02:46.954][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-12-13 16:02:46.956][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-12-13 16:02:46.957][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-12-13 16:02:46.959][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-12-13 16:02:46.961][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-12-13 16:02:46.962][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-12-13 16:02:46.964][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-12-13 16:02:46.966][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-12-13 16:02:46.968][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-12-13 16:02:46.969][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-12-13 16:02:46.971][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-12-13 16:02:46.973][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-12-13 16:02:46.974][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-12-13 16:02:46.976][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-12-13 16:02:46.978][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-12-13 16:02:46.980][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-12-13 16:02:46.981][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-12-13 16:02:46.983][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-12-13 16:02:46.985][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-12-13 16:02:46.986][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-12-13 16:02:46.988][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-12-13 16:02:46.990][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-12-13 16:02:46.991][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-12-13 16:02:46.993][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-12-13 16:02:46.995][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-12-13 16:02:46.996][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-12-13 16:02:46.998][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-12-13 16:02:47.000][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-12-13 16:02:47.002][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-12-13 16:02:47.003][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-12-13 16:02:47.005][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-12-13 16:02:47.007][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-12-13 16:02:47.008][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-12-13 16:02:47.010][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-12-13 16:02:47.018][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-12-13 16:02:47.020][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2025-12-13 16:02:47.023][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-12-13 16:02:47.024][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:47.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:47.026][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:47.027][FUN] Functions in observer BiodbConfig: [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[2025-12-13 16:02:47.034][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:47.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-13 16:02:47.036][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-13 16:02:47.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:47.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:47.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:47.041][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[2025-12-13 16:02:47.042][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:47.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-13 16:02:47.044][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-13 16:02:47.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:47.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:47.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:47.049][FUN] Functions in observer BiodbConfig: [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[2025-12-13 16:02:47.050][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:47.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-13 16:02:47.052][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-13 16:02:47.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:47.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:47.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:47.056][FUN] Functions in observer BiodbConfig: [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[2025-12-13 16:02:47.058][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:47.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-13 16:02:47.060][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-13 16:02:47.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:47.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:47.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:47.064][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[2025-12-13 16:02:47.065][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:47.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-13 16:02:47.068][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-13 16:02:47.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:47.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:47.071][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:47.072][FUN] Functions in observer BiodbConfig: [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[2025-12-13 16:02:47.073][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:47.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-13 16:02:47.076][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-13 16:02:47.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:47.078][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:47.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:47.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-13 16:02:47.081][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:47.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-13 16:02:47.084][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-13 16:02:47.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:47.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:47.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:47.088][FUN] Functions in observer BiodbConfig: [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[2025-12-13 16:02:47.089][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:47.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-13 16:02:47.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-13 16:02:47.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:47.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:47.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:47.100][FUN] Functions in observer BiodbConfig: [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[2025-12-13 16:02:47.101][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:47.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-13 16:02:47.103][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-13 16:02:47.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:47.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:47.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:47.108][FUN] Functions in observer BiodbConfig: [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[2025-12-13 16:02:47.109][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:47.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-13 16:02:47.112][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-13 16:02:47.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:47.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:47.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:47.116][FUN] Functions in observer BiodbConfig: [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[2025-12-13 16:02:47.117][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:47.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-13 16:02:47.120][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-13 16:02:47.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:47.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:47.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:47.124][FUN] Functions in observer BiodbConfig: [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[2025-12-13 16:02:47.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:47.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-13 16:02:47.127][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-13 16:02:47.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:47.130][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:47.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:47.132][FUN] Functions in observer BiodbConfig: [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[2025-12-13 16:02:47.133][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:47.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-13 16:02:47.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-13 16:02:47.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:47.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:47.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:47.140][FUN] Functions in observer BiodbConfig: [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[2025-12-13 16:02:47.141][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:47.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-13 16:02:47.143][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-13 16:02:47.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:47.146][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:47.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:47.148][FUN] Functions in observer BiodbConfig: [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[2025-12-13 16:02:47.149][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:47.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-13 16:02:47.151][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-13 16:02:47.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:47.153][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:47.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:47.156][FUN] Functions in observer BiodbConfig: [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[2025-12-13 16:02:47.157][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-13 16:02:47.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-13 16:02:47.159][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-13 16:02:47.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:47.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:47.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:47.163][FUN] Functions in observer BiodbConfig: [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[2025-12-13 16:02:47.166][biodb$loadDefinitions] Load definitions from file "/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/definitions.yml".
biodb.DEBUG[2025-12-13 16:02:47.179][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-12-13 16:02:47.181][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-12-13 16:02:47.182][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-12-13 16:02:47.184][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-12-13 16:02:47.185][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-12-13 16:02:47.186][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-12-13 16:02:47.188][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-12-13 16:02:47.189][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-12-13 16:02:47.190][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-12-13 16:02:47.191][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-12-13 16:02:47.193][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-12-13 16:02:47.194][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-12-13 16:02:47.195][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-12-13 16:02:47.196][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-12-13 16:02:47.198][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-12-13 16:02:47.198][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-12-13 16:02:47.198][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-12-13 16:02:47.198][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-12-13 16:02:47.198][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-12-13 16:02:47.198][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-12-13 16:02:47.198][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-12-13 16:02:47.198][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-12-13 16:02:47.198][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-12-13 16:02:47.198][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-12-13 16:02:47.198][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-12-13 16:02:47.199][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-12-13 16:02:47.200][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-12-13 16:02:47.200][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-12-13 16:02:47.200][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-12-13 16:02:47.202][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-12-13 16:02:47.203][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-12-13 16:02:47.204][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-12-13 16:02:47.205][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-12-13 16:02:47.206][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-12-13 16:02:47.207][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-12-13 16:02:47.209][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-12-13 16:02:47.210][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-12-13 16:02:47.210][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-12-13 16:02:47.211][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-12-13 16:02:47.212][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-12-13 16:02:47.213][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-12-13 16:02:47.215][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-12-13 16:02:47.215][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-12-13 16:02:47.222][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-12-13 16:02:47.224][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-12-13 16:02:47.226][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-12-13 16:02:47.228][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-12-13 16:02:47.230][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-12-13 16:02:47.232][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-12-13 16:02:47.254][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-12-13 16:02:47.273][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-12-13 16:02:47.283][biodb::testThat]
biodb.INFO [2025-12-13 16:02:47.285][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-12-13 16:02:47.286][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-13 16:02:47.288][biodb::testThat]
biodb.TRACE[2025-12-13 16:02:47.292][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-12-13 16:02:47.294][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-12-13 16:02:47.298][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-12-13 16:02:47.308][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-12-13 16:02:47.309][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-13 16:02:47.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-13 16:02:47.336][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:47.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:47.339][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:47.340][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-12-13 16:02:47.349][ef$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:47.351][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:47.352][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.353][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.355][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:47.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:47.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.376][ef$get] Asked field names are: charge.
biodb.TRACE[2025-12-13 16:02:47.378][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-13 16:02:47.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.380][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.416][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-13 16:02:47.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-13 16:02:47.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.422][ef$get] Asked field names are: formula.
biodb.TRACE[2025-12-13 16:02:47.423][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-13 16:02:47.424][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.425][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.427][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-13 16:02:47.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-13 16:02:47.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.432][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-12-13 16:02:47.433][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-13 16:02:47.434][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.436][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.437][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-13 16:02:47.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-13 16:02:47.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.442][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-13 16:02:47.444][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-13 16:02:47.445][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.446][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.447][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-13 16:02:47.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-13 16:02:47.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.453][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:47.454][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:47.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.457][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.458][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:47.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:47.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.464][ef$get] Asked field names are: mass.
biodb.TRACE[2025-12-13 16:02:47.465][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:47.466][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.467][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.469][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-12-13 16:02:47.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:47.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.474][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:47.476][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:47.477][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.478][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.480][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:47.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:47.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.485][ef$get] Asked field names are: name.
biodb.TRACE[2025-12-13 16:02:47.486][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-12-13 16:02:47.487][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.489][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.490][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-13 16:02:47.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-13 16:02:47.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.496][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-12-13 16:02:47.497][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-13 16:02:47.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.504][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.506][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-12-13 16:02:47.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-13 16:02:47.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.511][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-12-13 16:02:47.513][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-13 16:02:47.514][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.515][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.516][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-13 16:02:47.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-13 16:02:47.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.522][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:02:47.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:02:47.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.527][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:02:47.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:02:47.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:47.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:47.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.537][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:02:47.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:02:47.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.542][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:47.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:47.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.547][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:47.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:47.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.552][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:47.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:47.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.604][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:47.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:47.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:47.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:47.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.616][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:47.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:47.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-12-13 16:02:47.621][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-12-13 16:02:47.625][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-13 16:02:47.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-13 16:02:47.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.630][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-13 16:02:47.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-13 16:02:47.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.707][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-13 16:02:47.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-13 16:02:47.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.713][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-13 16:02:47.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-13 16:02:47.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.718][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:47.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:47.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.723][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:47.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:47.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.728][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-12-13 16:02:47.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-12-13 16:02:47.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.733][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-12-13 16:02:47.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-12-13 16:02:47.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.738][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-12-13 16:02:47.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-12-13 16:02:47.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.743][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-12-13 16:02:47.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-12-13 16:02:47.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:47.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:47.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.772][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:02:47.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:02:47.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.783][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:47.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:47.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.788][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:47.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:47.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.793][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:47.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:47.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.800][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:47.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:47.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.805][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:47.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:47.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:47.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:47.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.816][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:02:47.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:02:47.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.821][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:02:47.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:02:47.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:02:47.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:02:47.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.840][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:47.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:47.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:47.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:47.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.850][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:47.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:47.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.855][ef$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:47.856][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:47.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.859][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:47.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:47.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.881][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:02:47.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:02:47.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.886][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:02:47.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:02:47.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.891][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:02:47.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:02:47.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.896][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:02:47.898][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:02:47.899][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.900][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.901][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:02:47.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:02:47.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.917][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-13 16:02:47.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-13 16:02:47.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.922][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-13 16:02:47.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-13 16:02:47.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.927][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-13 16:02:47.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-13 16:02:47.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.932][ef$get] Asked field names are: name.
biodb.TRACE[2025-12-13 16:02:47.933][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-12-13 16:02:47.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.936][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.937][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-13 16:02:47.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-13 16:02:47.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.952][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-13 16:02:47.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-13 16:02:47.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.957][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-13 16:02:47.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-13 16:02:47.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.962][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-13 16:02:47.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-13 16:02:47.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.967][ef$get] Asked field names are: formula.
biodb.TRACE[2025-12-13 16:02:47.969][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-13 16:02:47.970][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.971][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.972][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-13 16:02:47.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-13 16:02:47.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.988][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:47.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:47.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.993][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:47.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:47.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:47.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:47.998][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:48.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:48.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.003][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:48.005][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:48.006][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.007][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.008][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:48.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:48.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.024][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:48.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:48.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.029][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:48.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:48.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.034][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:48.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:48.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.040][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:48.041][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:48.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.043][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.049][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:48.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:48.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.065][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-13 16:02:48.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-13 16:02:48.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.070][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-13 16:02:48.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-13 16:02:48.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.075][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-13 16:02:48.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-13 16:02:48.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.080][ef$get] Asked field names are: charge.
biodb.TRACE[2025-12-13 16:02:48.082][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-13 16:02:48.083][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.084][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.085][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-13 16:02:48.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-13 16:02:48.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.100][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-13 16:02:48.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-13 16:02:48.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.106][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-13 16:02:48.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-13 16:02:48.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.111][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-13 16:02:48.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-13 16:02:48.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.116][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-13 16:02:48.117][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-13 16:02:48.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.120][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.121][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-13 16:02:48.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-13 16:02:48.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.136][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:48.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:48.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.142][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:48.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:48.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.147][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:48.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:48.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.152][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:48.153][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:48.154][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.155][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.157][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:48.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:48.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.172][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-13 16:02:48.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-13 16:02:48.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.177][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-13 16:02:48.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-13 16:02:48.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.183][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-13 16:02:48.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-13 16:02:48.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.188][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-12-13 16:02:48.189][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-13 16:02:48.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.191][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.193][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-13 16:02:48.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-13 16:02:48.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.208][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-13 16:02:48.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-13 16:02:48.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.214][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-13 16:02:48.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-13 16:02:48.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.223][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-13 16:02:48.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-13 16:02:48.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.229][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-13 16:02:48.230][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-13 16:02:48.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.232][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.234][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-13 16:02:48.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-13 16:02:48.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.249][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-13 16:02:48.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-13 16:02:48.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.255][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-13 16:02:48.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-13 16:02:48.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.260][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-13 16:02:48.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-13 16:02:48.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.265][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-12-13 16:02:48.267][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-13 16:02:48.268][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.269][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.270][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-13 16:02:48.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-13 16:02:48.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.287][ef$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:48.288][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:48.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.291][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.298][ef$get] Asked field names are: charge.
biodb.TRACE[2025-12-13 16:02:48.299][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-13 16:02:48.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.302][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.309][ef$get] Asked field names are: formula.
biodb.TRACE[2025-12-13 16:02:48.310][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-13 16:02:48.312][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.313][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.319][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-12-13 16:02:48.321][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-13 16:02:48.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.323][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.330][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-13 16:02:48.332][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-13 16:02:48.333][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.334][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.341][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:48.342][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:48.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.345][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.351][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:48.353][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:48.354][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.355][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.362][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:48.364][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:48.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.366][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.374][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-13 16:02:48.375][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-13 16:02:48.376][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.378][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.384][ef$get] Asked field names are: name.
biodb.TRACE[2025-12-13 16:02:48.386][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-12-13 16:02:48.387][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.388][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.395][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-12-13 16:02:48.397][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-13 16:02:48.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.399][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.428][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-2528-content.xml".
biodb.DEBUG[2025-12-13 16:02:48.476][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-12-13 16:02:48.478][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-12-13 16:02:48.480][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-12-13 16:02:48.481][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-13 16:02:48.482][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-13 16:02:48.489][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:48.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:48.491][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:48.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-12-13 16:02:48.495][ef$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:48.497][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:48.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.500][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.501][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:48.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:48.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.530][ef$get] Asked field names are: charge.
biodb.TRACE[2025-12-13 16:02:48.532][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-13 16:02:48.533][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.534][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.536][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-13 16:02:48.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-13 16:02:48.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.542][ef$get] Asked field names are: formula.
biodb.TRACE[2025-12-13 16:02:48.543][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-13 16:02:48.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.546][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.548][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-13 16:02:48.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-13 16:02:48.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.554][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-12-13 16:02:48.555][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-13 16:02:48.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.558][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.560][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-13 16:02:48.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-13 16:02:48.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.565][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-13 16:02:48.566][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-13 16:02:48.567][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.573][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.575][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-13 16:02:48.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-13 16:02:48.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.580][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:48.582][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:48.583][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.584][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.586][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:48.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:48.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.591][ef$get] Asked field names are: mass.
biodb.TRACE[2025-12-13 16:02:48.592][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:48.593][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.595][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.596][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-12-13 16:02:48.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:48.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.602][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:48.603][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:48.604][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.605][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.607][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:48.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:48.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.612][ef$get] Asked field names are: name.
biodb.TRACE[2025-12-13 16:02:48.614][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-12-13 16:02:48.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.616][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.618][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-13 16:02:48.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-13 16:02:48.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.623][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-12-13 16:02:48.624][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-13 16:02:48.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.626][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.628][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-12-13 16:02:48.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-13 16:02:48.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.633][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-12-13 16:02:48.634][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-13 16:02:48.635][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.637][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.638][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-13 16:02:48.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-13 16:02:48.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.643][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:02:48.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:02:48.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.648][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:02:48.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:02:48.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.653][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:48.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:48.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.658][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:02:48.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:02:48.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.663][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:48.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:48.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:48.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:48.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.673][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:48.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:48.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.678][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:48.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:48.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.683][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:48.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:48.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:48.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:48.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-12-13 16:02:48.694][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 2528.
biodb.TRACE[2025-12-13 16:02:48.721][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-13 16:02:48.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-13 16:02:48.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.727][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-13 16:02:48.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-13 16:02:48.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.732][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-13 16:02:48.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-13 16:02:48.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.741][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-13 16:02:48.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-13 16:02:48.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.746][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:48.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:48.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.751][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:48.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:48.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.756][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-12-13 16:02:48.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-12-13 16:02:48.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.761][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-12-13 16:02:48.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-12-13 16:02:48.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.766][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-12-13 16:02:48.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-12-13 16:02:48.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.771][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-12-13 16:02:48.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-12-13 16:02:48.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:48.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:48.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.788][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:02:48.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:02:48.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:48.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:48.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.803][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:48.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:48.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.809][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:48.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:48.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:48.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:48.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.821][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:48.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:48.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.826][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:48.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:48.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.831][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:02:48.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:02:48.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.836][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:02:48.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:02:48.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.841][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:02:48.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:02:48.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.868][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:48.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:48.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:48.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:48.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:48.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:48.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.883][ef$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:48.884][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:48.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.886][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.888][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:48.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:48.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.908][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:02:48.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:02:48.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.913][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:02:48.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:02:48.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.918][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:02:48.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:02:48.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.923][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:02:48.924][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:02:48.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.927][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.928][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:02:48.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:02:48.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.943][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-13 16:02:48.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-13 16:02:48.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.948][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-13 16:02:48.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-13 16:02:48.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.953][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-13 16:02:48.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-13 16:02:48.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.958][ef$get] Asked field names are: name.
biodb.TRACE[2025-12-13 16:02:48.960][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-12-13 16:02:48.961][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.962][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.963][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-13 16:02:48.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-13 16:02:48.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.979][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-13 16:02:48.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-13 16:02:48.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.984][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-13 16:02:48.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-13 16:02:48.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.989][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-13 16:02:48.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-13 16:02:48.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:48.994][ef$get] Asked field names are: formula.
biodb.TRACE[2025-12-13 16:02:48.996][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-13 16:02:48.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:48.998][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.000][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-13 16:02:49.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-13 16:02:49.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.016][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-12-13 16:02:49.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:49.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.021][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:49.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:49.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.026][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:49.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:49.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.031][ef$get] Asked field names are: mass.
biodb.TRACE[2025-12-13 16:02:49.033][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:49.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.035][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.036][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-12-13 16:02:49.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:49.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.052][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:49.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:49.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.058][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:49.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:49.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.063][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:49.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:49.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.068][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:49.069][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:49.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.072][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.073][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:49.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:49.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.093][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:49.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:49.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.098][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:49.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:49.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.103][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:49.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:49.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.109][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:49.110][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:49.111][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.112][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.114][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:49.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:49.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.130][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-13 16:02:49.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-13 16:02:49.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.136][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-13 16:02:49.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-13 16:02:49.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.141][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-13 16:02:49.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-13 16:02:49.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.147][ef$get] Asked field names are: charge.
biodb.TRACE[2025-12-13 16:02:49.148][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-13 16:02:49.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.151][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.152][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-13 16:02:49.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-13 16:02:49.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.169][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-13 16:02:49.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-13 16:02:49.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.175][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-13 16:02:49.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-13 16:02:49.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.180][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-13 16:02:49.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-13 16:02:49.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.185][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-13 16:02:49.186][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-13 16:02:49.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.189][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.190][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-13 16:02:49.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-13 16:02:49.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.205][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:49.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:49.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.211][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:49.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:49.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.216][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:49.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:49.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.221][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:49.222][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:49.224][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.225][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.226][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:49.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:49.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.242][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-13 16:02:49.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-13 16:02:49.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.247][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-13 16:02:49.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-13 16:02:49.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.252][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-13 16:02:49.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-13 16:02:49.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.262][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-12-13 16:02:49.263][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-13 16:02:49.264][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.265][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.267][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-13 16:02:49.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-13 16:02:49.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.282][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-13 16:02:49.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-13 16:02:49.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.287][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-13 16:02:49.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-13 16:02:49.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.292][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-13 16:02:49.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-13 16:02:49.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.298][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-13 16:02:49.299][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-13 16:02:49.300][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.301][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.302][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-13 16:02:49.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-13 16:02:49.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.318][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-13 16:02:49.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-13 16:02:49.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.323][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-13 16:02:49.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-13 16:02:49.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.328][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-13 16:02:49.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-13 16:02:49.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.334][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-12-13 16:02:49.335][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-13 16:02:49.336][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.337][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.339][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-13 16:02:49.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-13 16:02:49.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.354][ef$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:49.356][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:49.357][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.358][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.365][ef$get] Asked field names are: charge.
biodb.TRACE[2025-12-13 16:02:49.366][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-13 16:02:49.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.369][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.375][ef$get] Asked field names are: formula.
biodb.TRACE[2025-12-13 16:02:49.377][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-13 16:02:49.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.379][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.385][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-12-13 16:02:49.387][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-13 16:02:49.388][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.389][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.396][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-13 16:02:49.397][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-13 16:02:49.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.399][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.406][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:49.407][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:49.409][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.410][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.416][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:49.418][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:49.419][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.420][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.426][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:49.428][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:49.429][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.430][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.441][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-13 16:02:49.442][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-13 16:02:49.444][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.445][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.452][ef$get] Asked field names are: name.
biodb.TRACE[2025-12-13 16:02:49.453][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-12-13 16:02:49.454][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.456][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.462][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-12-13 16:02:49.464][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-13 16:02:49.465][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.466][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.473][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-7799-content.xml".
biodb.DEBUG[2025-12-13 16:02:49.475][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-12-13 16:02:49.476][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-12-13 16:02:49.478][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-12-13 16:02:49.479][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-13 16:02:49.480][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-13 16:02:49.487][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:49.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:49.490][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:49.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-12-13 16:02:49.494][ef$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:49.495][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:49.496][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.497][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:49.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:49.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.504][ef$get] Asked field names are: charge.
biodb.TRACE[2025-12-13 16:02:49.505][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-13 16:02:49.507][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.508][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.509][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-13 16:02:49.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-13 16:02:49.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.515][ef$get] Asked field names are: formula.
biodb.TRACE[2025-12-13 16:02:49.516][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-13 16:02:49.517][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.518][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.520][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-13 16:02:49.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-13 16:02:49.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.525][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-12-13 16:02:49.526][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-13 16:02:49.527][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.529][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.530][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-13 16:02:49.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-13 16:02:49.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.535][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-13 16:02:49.536][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-13 16:02:49.538][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.539][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.540][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-13 16:02:49.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-13 16:02:49.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.545][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:49.547][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:49.548][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.549][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.551][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:49.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:49.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.556][ef$get] Asked field names are: mass.
biodb.TRACE[2025-12-13 16:02:49.557][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:49.559][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.560][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.561][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-12-13 16:02:49.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:49.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.567][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:49.568][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:49.569][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.570][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.572][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:49.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:49.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.577][ef$get] Asked field names are: name.
biodb.TRACE[2025-12-13 16:02:49.578][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-12-13 16:02:49.579][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.581][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.582][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-13 16:02:49.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-13 16:02:49.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.588][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-12-13 16:02:49.589][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-13 16:02:49.591][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.592][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.593][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-12-13 16:02:49.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-13 16:02:49.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.599][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-12-13 16:02:49.600][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-13 16:02:49.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.602][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.604][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-13 16:02:49.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-13 16:02:49.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.614][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:02:49.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:02:49.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.619][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:02:49.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:02:49.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.624][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:49.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:49.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.629][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:02:49.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:02:49.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:49.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:49.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.639][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:49.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:49.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.644][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:49.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:49.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.650][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:49.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:49.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:49.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:49.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:49.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:49.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-12-13 16:02:49.665][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 7799.
biodb.TRACE[2025-12-13 16:02:49.667][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-13 16:02:49.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-13 16:02:49.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.672][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-13 16:02:49.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-13 16:02:49.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.677][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-13 16:02:49.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-13 16:02:49.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.682][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-13 16:02:49.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-13 16:02:49.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.687][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:49.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:49.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.692][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:49.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:49.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.697][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-12-13 16:02:49.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-12-13 16:02:49.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.703][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-12-13 16:02:49.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-12-13 16:02:49.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.708][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-12-13 16:02:49.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-12-13 16:02:49.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.713][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-12-13 16:02:49.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-12-13 16:02:49.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:49.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:49.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.730][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:02:49.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:02:49.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.741][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:49.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:49.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.746][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:49.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:49.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:49.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:49.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:49.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:49.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:49.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:49.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.770][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:49.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:49.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.775][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:02:49.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:02:49.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.781][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:02:49.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:02:49.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.790][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:02:49.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:02:49.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.803][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:49.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:49.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.808][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:49.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:49.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:49.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:49.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.818][ef$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:49.820][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:49.821][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.822][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:49.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:49.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.839][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-13 16:02:49.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-13 16:02:49.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.844][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-13 16:02:49.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-13 16:02:49.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.849][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-13 16:02:49.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-13 16:02:49.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.854][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-12-13 16:02:49.855][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-13 16:02:49.856][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.858][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.859][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-13 16:02:49.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-13 16:02:49.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.874][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-13 16:02:49.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-13 16:02:49.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.880][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-13 16:02:49.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-13 16:02:49.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.885][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-13 16:02:49.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-13 16:02:49.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.890][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-12-13 16:02:49.891][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-13 16:02:49.892][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.893][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.895][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-13 16:02:49.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-13 16:02:49.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.910][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-13 16:02:49.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-13 16:02:49.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.915][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-13 16:02:49.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-13 16:02:49.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.920][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-13 16:02:49.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-13 16:02:49.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.925][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-13 16:02:49.927][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-13 16:02:49.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.929][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.930][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-13 16:02:49.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-13 16:02:49.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.946][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:49.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:49.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.951][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:49.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:49.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.961][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:49.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:49.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.967][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:49.968][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:49.969][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.970][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.972][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:49.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:49.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.988][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:49.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:49.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.994][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:49.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:49.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:49.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:49.999][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:50.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:50.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.004][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:50.005][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:50.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.008][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.009][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:50.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:50.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.025][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:50.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:50.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.031][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:50.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:50.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.036][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:50.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:50.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.041][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:50.043][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:50.044][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.045][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.046][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:50.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:50.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.064][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-13 16:02:50.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-13 16:02:50.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.069][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-13 16:02:50.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-13 16:02:50.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.074][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-13 16:02:50.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-13 16:02:50.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.080][ef$get] Asked field names are: charge.
biodb.TRACE[2025-12-13 16:02:50.081][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-13 16:02:50.082][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.084][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.085][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-13 16:02:50.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-13 16:02:50.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.102][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-13 16:02:50.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-13 16:02:50.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.108][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-13 16:02:50.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-13 16:02:50.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.113][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-13 16:02:50.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-13 16:02:50.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.118][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-13 16:02:50.119][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-13 16:02:50.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.122][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.123][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-13 16:02:50.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-13 16:02:50.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.143][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-13 16:02:50.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-13 16:02:50.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.148][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-13 16:02:50.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-13 16:02:50.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.153][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-13 16:02:50.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-13 16:02:50.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.158][ef$get] Asked field names are: name.
biodb.TRACE[2025-12-13 16:02:50.160][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-12-13 16:02:50.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.162][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.163][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-13 16:02:50.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-13 16:02:50.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.179][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-13 16:02:50.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-13 16:02:50.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.184][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-13 16:02:50.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-13 16:02:50.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.189][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-13 16:02:50.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-13 16:02:50.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.194][ef$get] Asked field names are: formula.
biodb.TRACE[2025-12-13 16:02:50.195][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-13 16:02:50.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.197][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.199][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-13 16:02:50.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-13 16:02:50.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.214][ef$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:02:50.216][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:02:50.217][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.218][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.225][ef$get] Asked field names are: charge.
biodb.TRACE[2025-12-13 16:02:50.226][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-13 16:02:50.227][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.228][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.235][ef$get] Asked field names are: formula.
biodb.TRACE[2025-12-13 16:02:50.236][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-13 16:02:50.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.238][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.245][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-12-13 16:02:50.246][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-13 16:02:50.247][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.249][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.255][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-13 16:02:50.257][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-13 16:02:50.258][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.259][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.265][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:50.267][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-13 16:02:50.268][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.269][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.276][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:50.277][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-13 16:02:50.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.279][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.286][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:50.287][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:02:50.289][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.290][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.296][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-13 16:02:50.298][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-13 16:02:50.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.300][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.306][ef$get] Asked field names are: name.
biodb.TRACE[2025-12-13 16:02:50.308][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-12-13 16:02:50.309][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.310][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:02:50.321][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-12-13 16:02:50.323][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-13 16:02:50.324][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:02:50.325][ef$get] fields variable is a list.
biodb.INFO [2025-12-13 16:02:50.335][biodb::testThat]
biodb.INFO [2025-12-13 16:02:50.337][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-12-13 16:02:50.338][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-13 16:02:50.339][biodb::testThat]
biodb.DEBUG[2025-12-13 16:02:50.342][private$loadEntries] Creating entries from ids [3]: "15440, 2528, 7799".
biodb.DEBUG[2025-12-13 16:02:50.354][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-12-13 16:02:50.358][cch$loadContents] Load 3 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2025-12-13 16:02:50.360][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-12-13 16:02:50.361][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-12-13 16:02:50.362][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-12-13 16:02:50.364][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-12-13 16:02:50.371][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-12-13 16:02:50.372][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-13 16:02:50.373][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-13 16:02:50.379][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:50.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:50.381][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:50.383][FUN] Functions in observer 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[2025-12-13 16:02:50.385][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
fscache.INFO [2025-12-13 16:02:50.413][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
sched.DEBUG[2025-12-13 16:02:50.414][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-13 16:02:50.416][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-13 16:02:50.417][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-12-13 16:02:50.812][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[2025-12-13 16:02:50.813][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-13 16:02:50.815][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[2025-12-13 16:02:50.816][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 [2025-12-13 16:02:51.220][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-12-13 16:02:51.221][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-13 16:02:51.222][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-13 16:02:51.224][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-12-13 16:02:51.610][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[2025-12-13 16:02:51.611][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-13 16:02:51.613][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[2025-12-13 16:02:51.614][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 [2025-12-13 16:02:52.247][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-12-13 16:02:52.249][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-13 16:02:52.250][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-13 16:02:52.251][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-12-13 16:02:52.638][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[2025-12-13 16:02:52.639][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-13 16:02:52.641][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[2025-12-13 16:02:52.642][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 [2025-12-13 16:02:53.039][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-12-13 16:02:53.041][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-13 16:02:53.042][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-13 16:02:53.044][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-12-13 16:02:53.429][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[2025-12-13 16:02:53.430][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-13 16:02:53.432][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[2025-12-13 16:02:53.433][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 [2025-12-13 16:02:53.831][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-12-13 16:02:53.833][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-13 16:02:53.834][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-13 16:02:53.835][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-12-13 16:02:54.221][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[2025-12-13 16:02:54.222][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-13 16:02:54.223][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[2025-12-13 16:02:54.225][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 [2025-12-13 16:02:54.623][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-12-13 16:02:54.625][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-13 16:02:54.626][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-13 16:02:54.627][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-12-13 16:02:55.013][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[2025-12-13 16:02:55.015][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-13 16:02:55.016][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[2025-12-13 16:02:55.017][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 [2025-12-13 16:02:55.416][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-12-13 16:02:55.417][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-13 16:02:55.419][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-13 16:02:55.425][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-12-13 16:02:55.818][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[2025-12-13 16:02:55.820][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-13 16:02:55.821][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[2025-12-13 16:02:55.823][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 [2025-12-13 16:02:56.221][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-12-13 16:02:56.222][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-13 16:02:56.223][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-13 16:02:56.225][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-12-13 16:02:56.611][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[2025-12-13 16:02:56.612][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-13 16:02:56.613][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[2025-12-13 16:02:56.614][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 [2025-12-13 16:02:57.013][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-12-13 16:02:57.014][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-13 16:02:57.015][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-13 16:02:57.017][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-12-13 16:02:57.403][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[2025-12-13 16:02:57.404][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-13 16:02:57.405][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[2025-12-13 16:02:57.407][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 [2025-12-13 16:02:57.804][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-12-13 16:02:57.806][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-13 16:02:57.807][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-13 16:02:57.809][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-12-13 16:02:58.194][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[2025-12-13 16:02:58.196][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-13 16:02:58.197][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[2025-12-13 16:02:58.198][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2025-12-13 16:02:58.596][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
biodb.DEBUG[2025-12-13 16:02:58.598][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-12-13 16:02:58.599][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-13 16:02:58.600][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-13 16:02:58.607][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:02:58.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:02:58.609][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:02:58.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-12-13 16:02:58.635][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
fscache.INFO [2025-12-13 16:02:58.676][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
sched.DEBUG[2025-12-13 16:02:58.707][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-13 16:02:58.708][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-13 16:02:58.710][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-12-13 16:02:59.096][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-12-13 16:02:59.097][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-13 16:02:59.099][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-13 16:02:59.100][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-12-13 16:02:59.497][private$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[2025-12-13 16:02:59.499][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-13 16:02:59.500][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-13 16:02:59.502][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-12-13 16:02:59.887][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-12-13 16:02:59.888][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-13 16:02:59.889][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-13 16:02:59.890][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-12-13 16:03:00.289][private$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[2025-12-13 16:03:00.290][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-13 16:03:00.291][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-13 16:03:00.293][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-12-13 16:03:00.678][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-12-13 16:03:00.680][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-13 16:03:00.681][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-13 16:03:00.682][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-12-13 16:03:01.295][private$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[2025-12-13 16:03:01.296][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-13 16:03:01.298][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-13 16:03:01.299][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-12-13 16:03:01.685][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-12-13 16:03:01.694][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-13 16:03:01.695][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-13 16:03:01.696][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-12-13 16:03:02.094][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2025-12-13 16:03:02.096][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-13 16:03:02.097][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-13 16:03:02.099][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-12-13 16:03:02.484][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-12-13 16:03:02.485][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-13 16:03:02.486][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-13 16:03:02.488][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-12-13 16:03:02.888][private$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[2025-12-13 16:03:02.890][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-13 16:03:02.893][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-13 16:03:02.895][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-12-13 16:03:03.284][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-12-13 16:03:03.286][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-13 16:03:03.287][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-13 16:03:03.288][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-12-13 16:03:03.689][private$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[2025-12-13 16:03:03.691][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-13 16:03:03.694][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-13 16:03:03.697][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-12-13 16:03:04.091][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-12-13 16:03:04.093][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-13 16:03:04.095][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-13 16:03:04.097][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-12-13 16:03:04.495][private$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[2025-12-13 16:03:04.497][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-13 16:03:04.498][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-13 16:03:04.500][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-12-13 16:03:04.885][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-12-13 16:03:04.886][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-13 16:03:04.887][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-13 16:03:04.889][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-12-13 16:03:05.286][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2025-12-13 16:03:05.288][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-13 16:03:05.289][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-13 16:03:05.291][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-12-13 16:03:05.678][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-12-13 16:03:05.679][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-13 16:03:05.680][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-13 16:03:05.681][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-12-13 16:03:06.297][private$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[2025-12-13 16:03:06.299][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-13 16:03:06.300][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-13 16:03:06.302][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-12-13 16:03:06.688][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-12-13 16:03:06.689][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-13 16:03:06.690][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-13 16:03:06.692][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-12-13 16:03:07.090][private$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[2025-12-13 16:03:07.091][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-12-13 16:03:07.092][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-13 16:03:07.093][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-13 16:03:07.100][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:03:07.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:03:07.103][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:03:07.104][FUN] Functions in observer 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[2025-12-13 16:03:07.105][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
fscache.INFO [2025-12-13 16:03:07.108][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
sched.DEBUG[2025-12-13 16:03:07.109][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-13 16:03:07.110][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-13 16:03:07.112][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-12-13 16:03:07.497][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[2025-12-13 16:03:07.499][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-13 16:03:07.500][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[2025-12-13 16:03:07.502][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 [2025-12-13 16:03:08.129][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-12-13 16:03:08.130][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-13 16:03:08.131][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-13 16:03:08.133][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-12-13 16:03:08.523][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[2025-12-13 16:03:08.524][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-13 16:03:08.525][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[2025-12-13 16:03:08.527][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 [2025-12-13 16:03:08.926][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-12-13 16:03:08.927][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-13 16:03:08.928][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-13 16:03:08.930][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-12-13 16:03:09.319][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[2025-12-13 16:03:09.335][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-13 16:03:09.336][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[2025-12-13 16:03:09.338][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 [2025-12-13 16:03:09.735][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-12-13 16:03:09.737][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-13 16:03:09.738][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-13 16:03:09.740][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-12-13 16:03:10.128][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[2025-12-13 16:03:10.130][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-13 16:03:10.131][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[2025-12-13 16:03:10.132][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 [2025-12-13 16:03:10.530][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-12-13 16:03:10.531][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-13 16:03:10.533][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-13 16:03:10.534][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-12-13 16:03:10.920][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[2025-12-13 16:03:10.921][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-13 16:03:10.923][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[2025-12-13 16:03:10.924][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 [2025-12-13 16:03:11.323][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-12-13 16:03:11.324][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-13 16:03:11.325][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-13 16:03:11.327][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-12-13 16:03:11.714][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2025-12-13 16:03:11.715][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-13 16:03:11.717][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[2025-12-13 16:03:11.718][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 [2025-12-13 16:03:12.119][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-12-13 16:03:12.122][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-13 16:03:12.124][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-13 16:03:12.127][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-12-13 16:03:12.515][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[2025-12-13 16:03:12.516][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-13 16:03:12.518][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[2025-12-13 16:03:12.519][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 [2025-12-13 16:03:12.918][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-12-13 16:03:12.919][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-13 16:03:12.920][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-13 16:03:12.922][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-12-13 16:03:13.308][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2025-12-13 16:03:13.310][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-13 16:03:13.311][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-13 16:03:13.312][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 [2025-12-13 16:03:13.718][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-12-13 16:03:13.721][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-13 16:03:13.723][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-13 16:03:13.726][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-12-13 16:03:14.112][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2025-12-13 16:03:14.114][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-13 16:03:14.115][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-13 16:03:14.116][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2025-12-13 16:03:14.521][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-12-13 16:03:14.522][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-13 16:03:14.524][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-13 16:03:14.525][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-12-13 16:03:14.911][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[2025-12-13 16:03:14.913][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-13 16:03:14.914][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[2025-12-13 16:03:14.915][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 [2025-12-13 16:03:15.312][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
fscache.INFO [2025-12-13 16:03:15.314][cch$saveContents] Save 3 contents to /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2025-12-13 16:03:15.316][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-12-13 16:03:15.317][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-12-13 16:03:15.319][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-12-13 16:03:15.321][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-12-13 16:03:15.322][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-13 16:03:15.323][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-13 16:03:15.329][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:03:15.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:03:15.332][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:03:15.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-12-13 16:03:15.335][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:03:15.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:03:15.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:03:15.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:03:15.341][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:03:15.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:03:15.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:03:15.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:03:15.346][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:03:15.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:03:15.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:03:15.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-12-13 16:03:15.351][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-12-13 16:03:15.352][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-13 16:03:15.353][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-13 16:03:15.360][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:03:15.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:03:15.362][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:03:15.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-12-13 16:03:15.366][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:03:15.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:03:15.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:03:15.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:03:15.371][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:03:15.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:03:15.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:03:15.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:03:15.377][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:03:15.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:03:15.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:03:15.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-12-13 16:03:15.382][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-12-13 16:03:15.383][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-13 16:03:15.384][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-13 16:03:15.404][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:03:15.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:03:15.407][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:03:15.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-12-13 16:03:15.410][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:03:15.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:03:15.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:03:15.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:03:15.415][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-13 16:03:15.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-13 16:03:15.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:03:15.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:03:15.420][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:03:15.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:03:15.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:03:15.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:03:15.425][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:03:15.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:03:15.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:03:15.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:03:15.430][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:03:15.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:03:15.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:03:15.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:03:15.436][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:03:15.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:03:15.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:03:15.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:03:15.441][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:03:15.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:03:15.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:03:15.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:03:15.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:03:15.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:03:15.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:03:15.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:03:15.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:03:15.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:03:15.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:03:15.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:03:15.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:03:15.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:03:15.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:03:15.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:03:15.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:03:15.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:03:15.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:03:15.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:03:15.468][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:03:15.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:03:15.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:03:15.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:03:15.473][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:03:15.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:03:15.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:03:15.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:03:15.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:03:15.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:03:15.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:03:15.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:03:15.484][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:03:15.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:03:15.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:03:15.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:03:15.489][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:03:15.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:03:15.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:03:15.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:03:15.494][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:03:15.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:03:15.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:03:15.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:03:15.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-13 16:03:15.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-13 16:03:15.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:03:15.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-12-13 16:03:15.505][self$createEntryFromContent] Accession numbers: NA, NA, NA.
biodb.DEBUG[2025-12-13 16:03:15.506][self$createEntryFromContent] Found 3 entry/ies without an accession number. Set it/them to NULL.
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2025-12-13 16:03:15.685][biodb::testThat]
biodb.INFO [2025-12-13 16:03:15.686][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-12-13 16:03:15.688][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-13 16:03:15.689][biodb::testThat]
biodb.TRACE[2025-12-13 16:03:15.706][ef$get] Asked field names are: name.
biodb.TRACE[2025-12-13 16:03:15.708][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-12-13 16:03:15.709][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:03:15.710][ef$get] fields variable is a list.
biodb.DEBUG[2025-12-13 16:03:15.712][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 [2025-12-13 16:03:16.061][biodb::testThat]
biodb.INFO [2025-12-13 16:03:16.062][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-12-13 16:03:16.064][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-13 16:03:16.065][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2025-12-13 16:03:16.336][biodb::testThat]
biodb.INFO [2025-12-13 16:03:16.338][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-12-13 16:03:16.339][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-13 16:03:16.340][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2025-12-13 16:03:16.500][biodb::testThat]
biodb.INFO [2025-12-13 16:03:16.501][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-12-13 16:03:16.503][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-13 16:03:16.504][biodb::testThat]
biodb.INFO [2025-12-13 16:03:16.518][biodb::testThat]
biodb.INFO [2025-12-13 16:03:16.519][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-12-13 16:03:16.521][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-13 16:03:16.522][biodb::testThat]
biodb.INFO [2025-12-13 16:03:16.535][biodb::testThat]
biodb.INFO [2025-12-13 16:03:16.536][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-12-13 16:03:16.538][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-13 16:03:16.539][biodb::testThat]
biodb.DEBUG[2025-12-13 16:03:16.545][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-12-13 16:03:17.127][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-12-13 16:03:17.533][biodb::testThat]
biodb.INFO [2025-12-13 16:03:17.534][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-12-13 16:03:17.536][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-13 16:03:17.537][biodb::testThat]
biodb.TRACE[2025-12-13 16:03:17.569][ef$get] Asked field names are: name.
biodb.TRACE[2025-12-13 16:03:17.571][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-12-13 16:03:17.572][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:03:17.574][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:03:17.575][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:03:17.577][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:03:17.578][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:03:17.580][ef$get] fields variable is a list.
biodb.INFO [2025-12-13 16:03:17.582][biodb::testThat]
biodb.INFO [2025-12-13 16:03:17.584][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-12-13 16:03:17.585][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-13 16:03:17.587][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2025-12-13 16:03:17.747][biodb::testThat]
biodb.INFO [2025-12-13 16:03:17.748][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-12-13 16:03:17.749][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-13 16:03:17.750][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2025-12-13 16:03:17.808][biodb::testThat]
biodb.INFO [2025-12-13 16:03:17.810][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-12-13 16:03:17.811][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-13 16:03:17.812][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2025-12-13 16:03:17.872][biodb::testThat]
biodb.INFO [2025-12-13 16:03:17.874][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-12-13 16:03:17.875][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-13 16:03:17.876][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.TRACE[2025-12-13 16:03:17.935][ef$get] Asked field names are: name.
biodb.TRACE[2025-12-13 16:03:17.937][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-12-13 16:03:17.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:03:17.939][ef$get] fields variable is a list.
biodb.TRACE[2025-12-13 16:03:17.940][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:03:17.942][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-13 16:03:17.943][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-13 16:03:17.944][ef$get] fields variable is a list.
biodb.INFO [2025-12-13 16:03:17.946][biodb::testThat]
biodb.INFO [2025-12-13 16:03:17.947][biodb::testThat] Running test function  test.annotateMzValues_real_values  (" annotateMzValues() works correctly with real values. ").
biodb.INFO [2025-12-13 16:03:17.948][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-13 16:03:17.950][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2025-12-13 16:03:18.011][biodb::testThat]
biodb.INFO [2025-12-13 16:03:18.012][biodb::testThat] Running test function  test_annotateMzValues_additional_fields  (" Additional fields are accepted in annotateMzValues() ").
biodb.INFO [2025-12-13 16:03:18.013][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-13 16:03:18.015][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2025-12-13 16:03:18.073][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-12-13 16:03:18.074][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-12-13 16:03:18.076][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-12-13 16:03:18.077][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-13 16:03:18.078][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-13 16:03:18.079][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-13 16:03:18.080][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-13 16:03:18.081][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-12-13 16:03:18.082][FUN] Functions in observer 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)