Back to Long Tests report for BioC 3.22

This page was generated on 2026-01-10 23:55 -0500 (Sat, 10 Jan 2026).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.2 (2025-10-31) -- "[Not] Part in a Rumble" 4883
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: 2026-01-10 09:55 -0500 (Sat, 10 Jan 2026)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: RELEASE_3_22
git_last_commit: 28c1b2d
git_last_commit_date: 2025-10-29 11:12:25 -0500 (Wed, 29 Oct 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  ERROR  
merida1macOS 12.7.6 Monterey / x86_64  ERROR  

CHECK results for biodbChebi on merida1

To the developers/maintainers of the biodbChebi package:
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results


Summary

Package: biodbChebi
Version: 1.16.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbChebi_1.16.0.tar.gz
StartedAt: 2026-01-10 16:01:23 -0500 (Sat, 10 Jan 2026)
EndedAt: 2026-01-10 16:02:55 -0500 (Sat, 10 Jan 2026)
EllapsedTime: 92.4 seconds
RetCode: 1
Status:   ERROR  
CheckDir: biodbChebi.Rcheck
Warnings: NA

Tests output

biodbChebi.Rcheck/tests/testthat.Rout.fail


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

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> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2026-01-10 16:02:12.022][biodb::testContext]
biodb.INFO [2026-01-10 16:02:12.026][biodb::testContext] ********************************************************************************
biodb.INFO [2026-01-10 16:02:12.027][biodb::testContext] Test context - Generic long tests
biodb.INFO [2026-01-10 16:02:12.028][biodb::testContext] ********************************************************************************
biodb.INFO [2026-01-10 16:02:12.029][biodb::testContext]
biodb.INFO [2026-01-10 16:02:12.036][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2026-01-10 16:02:12.039][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2026-01-10 16:02:12.048][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-01-10 16:02:12.049][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2026-01-10 16:02:12.051][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2026-01-10 16:02:12.052][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.056][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2026-01-10 16:02:12.081][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2026-01-10 16:02:12.083][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.087][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2026-01-10 16:02:12.088][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2026-01-10 16:02:12.089][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.093][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2026-01-10 16:02:12.094][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2026-01-10 16:02:12.096][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2026-01-10 16:02:12.097][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.101][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2026-01-10 16:02:12.102][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2026-01-10 16:02:12.113][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2026-01-10 16:02:12.114][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.117][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2026-01-10 16:02:12.118][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2026-01-10 16:02:12.120][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.123][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2026-01-10 16:02:12.124][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2026-01-10 16:02:12.126][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2026-01-10 16:02:12.127][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.130][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2026-01-10 16:02:12.132][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2026-01-10 16:02:12.133][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.137][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2026-01-10 16:02:12.138][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2026-01-10 16:02:12.139][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2026-01-10 16:02:12.140][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.144][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2026-01-10 16:02:12.145][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2026-01-10 16:02:12.147][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2026-01-10 16:02:12.148][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2026-01-10 16:02:12.149][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2026-01-10 16:02:12.150][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2026-01-10 16:02:12.152][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.155][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2026-01-10 16:02:12.156][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2026-01-10 16:02:12.157][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.161][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2026-01-10 16:02:12.162][self$set] Set key entries.sep to "|".
biodb.DEBUG[2026-01-10 16:02:12.163][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.167][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2026-01-10 16:02:12.168][self$set] Set key offline to FALSE.
biodb.DEBUG[2026-01-10 16:02:12.169][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.173][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2026-01-10 16:02:12.174][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2026-01-10 16:02:12.176][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2026-01-10 16:02:12.177][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.180][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2026-01-10 16:02:12.182][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2026-01-10 16:02:12.197][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2026-01-10 16:02:12.198][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.202][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2026-01-10 16:02:12.203][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2026-01-10 16:02:12.204][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2026-01-10 16:02:12.205][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.208][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.212][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2026-01-10 16:02:12.256][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-01-10 16:02:12.279][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2026-01-10 16:02:12.280][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-01-10 16:02:12.281][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-01-10 16:02:12.283][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-01-10 16:02:12.284][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-01-10 16:02:12.285][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-01-10 16:02:12.287][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-01-10 16:02:12.288][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2026-01-10 16:02:12.289][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-01-10 16:02:12.291][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-01-10 16:02:12.292][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2026-01-10 16:02:12.293][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-01-10 16:02:12.294][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-01-10 16:02:12.296][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-01-10 16:02:12.297][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-01-10 16:02:12.297][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-01-10 16:02:12.297][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-01-10 16:02:12.297][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2026-01-10 16:02:12.297][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2026-01-10 16:02:12.299][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-01-10 16:02:12.300][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-10 16:02:12.301][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-10 16:02:12.302][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-01-10 16:02:12.304][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-10 16:02:12.305][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-10 16:02:12.306][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-01-10 16:02:12.308][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-01-10 16:02:12.309][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-01-10 16:02:12.310][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-01-10 16:02:12.312][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-01-10 16:02:12.313][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-01-10 16:02:12.315][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2026-01-10 16:02:12.317][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-01-10 16:02:12.319][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2026-01-10 16:02:12.320][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-01-10 16:02:12.322][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-01-10 16:02:12.323][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-01-10 16:02:12.324][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-01-10 16:02:12.326][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-01-10 16:02:12.327][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-01-10 16:02:12.328][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2026-01-10 16:02:12.330][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-01-10 16:02:12.331][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-01-10 16:02:12.333][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2026-01-10 16:02:12.334][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-01-10 16:02:12.335][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-01-10 16:02:12.337][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-01-10 16:02:12.338][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-01-10 16:02:12.338][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-01-10 16:02:12.338][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-01-10 16:02:12.338][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2026-01-10 16:02:12.338][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2026-01-10 16:02:12.340][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-01-10 16:02:12.341][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-10 16:02:12.343][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-10 16:02:12.344][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-01-10 16:02:12.350][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-10 16:02:12.352][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-10 16:02:12.353][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-01-10 16:02:12.354][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-01-10 16:02:12.355][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-01-10 16:02:12.356][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-01-10 16:02:12.358][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-01-10 16:02:12.359][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-01-10 16:02:12.361][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2026-01-10 16:02:12.363][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2026-01-10 16:02:12.364][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2026-01-10 16:02:12.365][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-01-10 16:02:12.367][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-01-10 16:02:12.368][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-01-10 16:02:12.369][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-01-10 16:02:12.370][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-01-10 16:02:12.372][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-01-10 16:02:12.373][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2026-01-10 16:02:12.375][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-01-10 16:02:12.376][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2026-01-10 16:02:12.377][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2026-01-10 16:02:12.378][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-01-10 16:02:12.380][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-01-10 16:02:12.381][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-01-10 16:02:12.382][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2026-01-10 16:02:12.384][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-01-10 16:02:12.385][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-10 16:02:12.386][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-10 16:02:12.387][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-01-10 16:02:12.389][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-10 16:02:12.390][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-10 16:02:12.391][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-01-10 16:02:12.392][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-01-10 16:02:12.394][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-01-10 16:02:12.395][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-01-10 16:02:12.396][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-01-10 16:02:12.397][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-01-10 16:02:12.399][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2026-01-10 16:02:12.401][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2026-01-10 16:02:12.402][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2026-01-10 16:02:12.404][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-01-10 16:02:12.405][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-01-10 16:02:12.406][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-01-10 16:02:12.407][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-01-10 16:02:12.409][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-01-10 16:02:12.411][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-01-10 16:02:12.413][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2026-01-10 16:02:12.415][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-01-10 16:02:12.417][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2026-01-10 16:02:12.418][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2026-01-10 16:02:12.420][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-01-10 16:02:12.421][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-01-10 16:02:12.422][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-01-10 16:02:12.424][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2026-01-10 16:02:12.425][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-01-10 16:02:12.426][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-10 16:02:12.427][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-10 16:02:12.429][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-01-10 16:02:12.430][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-10 16:02:12.431][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-10 16:02:12.432][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-01-10 16:02:12.434][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-01-10 16:02:12.435][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-01-10 16:02:12.436][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-01-10 16:02:12.437][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-01-10 16:02:12.439][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-01-10 16:02:12.443][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-01-10 16:02:12.444][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.446][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:12.448][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:12.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.452][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:12.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:12.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.458][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:12.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:12.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.464][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:12.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:12.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.468][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[2026-01-10 16:02:12.469][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:12.471][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:12.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.474][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[2026-01-10 16:02:12.475][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:12.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:12.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.480][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:12.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:12.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:12.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:12.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.491][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:12.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:12.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.497][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:12.499][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:12.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.502][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.503][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:12.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:12.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.508][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:12.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:12.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.514][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:12.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:12.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.519][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[2026-01-10 16:02:12.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:12.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:12.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.525][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.526][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:12.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:12.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.533][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:12.535][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:12.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.539][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2026-01-10 16:02:12.544][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2026-01-10 16:02:12.546][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2026-01-10 16:02:12.547][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2026-01-10 16:02:12.549][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2026-01-10 16:02:12.551][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2026-01-10 16:02:12.553][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2026-01-10 16:02:12.555][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2026-01-10 16:02:12.557][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2026-01-10 16:02:12.559][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2026-01-10 16:02:12.561][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2026-01-10 16:02:12.563][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2026-01-10 16:02:12.564][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2026-01-10 16:02:12.566][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2026-01-10 16:02:12.568][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2026-01-10 16:02:12.570][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2026-01-10 16:02:12.577][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2026-01-10 16:02:12.579][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2026-01-10 16:02:12.581][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2026-01-10 16:02:12.583][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2026-01-10 16:02:12.585][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2026-01-10 16:02:12.587][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2026-01-10 16:02:12.588][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2026-01-10 16:02:12.590][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2026-01-10 16:02:12.592][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2026-01-10 16:02:12.595][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2026-01-10 16:02:12.597][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2026-01-10 16:02:12.600][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2026-01-10 16:02:12.603][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2026-01-10 16:02:12.605][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2026-01-10 16:02:12.607][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2026-01-10 16:02:12.609][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2026-01-10 16:02:12.611][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2026-01-10 16:02:12.613][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2026-01-10 16:02:12.614][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2026-01-10 16:02:12.616][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2026-01-10 16:02:12.618][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2026-01-10 16:02:12.620][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2026-01-10 16:02:12.622][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2026-01-10 16:02:12.624][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2026-01-10 16:02:12.626][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2026-01-10 16:02:12.628][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2026-01-10 16:02:12.630][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2026-01-10 16:02:12.632][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2026-01-10 16:02:12.634][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2026-01-10 16:02:12.636][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2026-01-10 16:02:12.637][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2026-01-10 16:02:12.639][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2026-01-10 16:02:12.641][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2026-01-10 16:02:12.643][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2026-01-10 16:02:12.645][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2026-01-10 16:02:12.647][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2026-01-10 16:02:12.649][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2026-01-10 16:02:12.651][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2026-01-10 16:02:12.653][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2026-01-10 16:02:12.655][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2026-01-10 16:02:12.656][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2026-01-10 16:02:12.658][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2026-01-10 16:02:12.660][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2026-01-10 16:02:12.663][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2026-01-10 16:02:12.665][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2026-01-10 16:02:12.667][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2026-01-10 16:02:12.668][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2026-01-10 16:02:12.670][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2026-01-10 16:02:12.672][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2026-01-10 16:02:12.674][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2026-01-10 16:02:12.676][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2026-01-10 16:02:12.678][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2026-01-10 16:02:12.680][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2026-01-10 16:02:12.682][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2026-01-10 16:02:12.685][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2026-01-10 16:02:12.687][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2026-01-10 16:02:12.689][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2026-01-10 16:02:12.691][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2026-01-10 16:02:12.693][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2026-01-10 16:02:12.695][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2026-01-10 16:02:12.697][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2026-01-10 16:02:12.699][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2026-01-10 16:02:12.701][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2026-01-10 16:02:12.703][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2026-01-10 16:02:12.705][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2026-01-10 16:02:12.707][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2026-01-10 16:02:12.709][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2026-01-10 16:02:12.717][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2026-01-10 16:02:12.719][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2026-01-10 16:02:12.723][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-01-10 16:02:12.724][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:12.726][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:12.727][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-10 16:02:12.739][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-10 16:02:12.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:12.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:12.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.745][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-10 16:02:12.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-10 16:02:12.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:12.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:12.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.754][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-10 16:02:12.757][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-10 16:02:12.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:12.760][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:12.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.764][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-10 16:02:12.766][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-10 16:02:12.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:12.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:12.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.772][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-10 16:02:12.774][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-10 16:02:12.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:12.777][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:12.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.782][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-10 16:02:12.785][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-10 16:02:12.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:12.789][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:12.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.793][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-10 16:02:12.795][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-10 16:02:12.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:12.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:12.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.801][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-10 16:02:12.803][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-10 16:02:12.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:12.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:12.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.814][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-10 16:02:12.817][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-10 16:02:12.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:12.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:12.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.822][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.823][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-10 16:02:12.826][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-10 16:02:12.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:12.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:12.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.832][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-10 16:02:12.835][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-10 16:02:12.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:12.837][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:12.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.841][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-10 16:02:12.844][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-10 16:02:12.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:12.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:12.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-10 16:02:12.853][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-10 16:02:12.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:12.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:12.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.859][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-10 16:02:12.862][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-10 16:02:12.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:12.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:12.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-10 16:02:12.871][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-10 16:02:12.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:12.873][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:12.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.877][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-10 16:02:12.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-10 16:02:12.880][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-10 16:02:12.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:12.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:12.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:12.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-10 16:02:12.888][biodb$loadDefinitions] Load definitions from file "/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/definitions.yml".
biodb.DEBUG[2026-01-10 16:02:12.901][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2026-01-10 16:02:12.904][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-01-10 16:02:12.906][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2026-01-10 16:02:12.907][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-01-10 16:02:12.909][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-01-10 16:02:12.910][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-01-10 16:02:12.912][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-01-10 16:02:12.913][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2026-01-10 16:02:12.915][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2026-01-10 16:02:12.917][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2026-01-10 16:02:12.918][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-01-10 16:02:12.920][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-01-10 16:02:12.922][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2026-01-10 16:02:12.923][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-01-10 16:02:12.925][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2026-01-10 16:02:12.925][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2026-01-10 16:02:12.925][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2026-01-10 16:02:12.925][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2026-01-10 16:02:12.925][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2026-01-10 16:02:12.925][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2026-01-10 16:02:12.925][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2026-01-10 16:02:12.925][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2026-01-10 16:02:12.925][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2026-01-10 16:02:12.925][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2026-01-10 16:02:12.925][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2026-01-10 16:02:12.927][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2026-01-10 16:02:12.928][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-01-10 16:02:12.928][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-01-10 16:02:12.928][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-01-10 16:02:12.930][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2026-01-10 16:02:12.931][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-10 16:02:12.932][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-10 16:02:12.934][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-01-10 16:02:12.935][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-10 16:02:12.937][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-10 16:02:12.938][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-01-10 16:02:12.939][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2026-01-10 16:02:12.939][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2026-01-10 16:02:12.941][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-01-10 16:02:12.942][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-01-10 16:02:12.944][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2026-01-10 16:02:12.945][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2026-01-10 16:02:12.945][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2026-01-10 16:02:12.954][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2026-01-10 16:02:12.957][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2026-01-10 16:02:12.959][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2026-01-10 16:02:12.961][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2026-01-10 16:02:12.963][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2026-01-10 16:02:12.965][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2026-01-10 16:02:12.990][super$initialize] Initialize connector chebi.
biodb.DEBUG[2026-01-10 16:02:13.011][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2026-01-10 16:02:13.021][biodb::testThat]
biodb.INFO [2026-01-10 16:02:13.022][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2026-01-10 16:02:13.023][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-10 16:02:13.025][biodb::testThat]
biodb.TRACE[2026-01-10 16:02:13.030][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2026-01-10 16:02:13.032][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-01-10 16:02:13.036][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-01-10 16:02:13.048][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-10 16:02:13.050][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-10 16:02:13.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-10 16:02:13.079][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:13.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:13.083][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:13.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-01-10 16:02:13.095][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:13.096][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:13.098][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.099][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:13.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:13.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.126][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-10 16:02:13.128][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-10 16:02:13.130][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.132][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.177][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-10 16:02:13.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-10 16:02:13.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.184][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-10 16:02:13.186][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-10 16:02:13.187][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.188][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.190][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-10 16:02:13.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-10 16:02:13.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.196][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-10 16:02:13.198][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-10 16:02:13.199][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.200][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.202][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-10 16:02:13.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-10 16:02:13.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.209][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-10 16:02:13.211][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-10 16:02:13.213][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.214][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.216][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-10 16:02:13.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-10 16:02:13.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.222][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:13.224][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:13.225][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.226][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.228][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:13.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:13.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.234][ef$get] Asked field names are: mass.
biodb.TRACE[2026-01-10 16:02:13.235][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:13.237][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.238][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.240][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-01-10 16:02:13.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:13.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.245][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:13.247][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:13.248][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.250][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.251][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:13.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:13.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.257][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-10 16:02:13.259][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-10 16:02:13.260][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.261][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.263][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-10 16:02:13.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-10 16:02:13.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.270][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-01-10 16:02:13.271][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-10 16:02:13.273][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.275][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.282][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-01-10 16:02:13.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-10 16:02:13.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.288][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-10 16:02:13.290][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-10 16:02:13.291][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.292][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.294][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-10 16:02:13.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-10 16:02:13.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.300][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:13.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:13.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.306][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:13.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:13.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:13.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:13.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.317][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:13.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:13.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:13.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:13.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.331][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:13.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:13.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.337][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:13.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:13.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.402][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:13.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:13.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.408][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:13.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:13.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:13.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:13.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-01-10 16:02:13.420][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2026-01-10 16:02:13.424][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-10 16:02:13.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-10 16:02:13.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.430][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-10 16:02:13.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-10 16:02:13.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.526][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-10 16:02:13.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-10 16:02:13.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.532][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-10 16:02:13.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-10 16:02:13.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.538][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:13.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:13.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.543][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:13.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:13.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.548][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-01-10 16:02:13.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-01-10 16:02:13.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.554][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-01-10 16:02:13.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-01-10 16:02:13.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.560][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-01-10 16:02:13.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-01-10 16:02:13.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.566][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-01-10 16:02:13.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-01-10 16:02:13.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:13.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:13.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.602][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:13.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:13.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:13.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:13.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:13.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:13.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.626][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:13.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:13.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:13.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:13.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:13.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:13.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.646][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:13.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:13.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.652][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:13.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:13.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.658][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:13.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:13.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.663][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:13.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:13.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:13.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:13.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:13.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:13.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:13.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:13.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.696][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:13.697][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:13.698][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.699][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:13.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:13.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.722][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:13.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:13.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.728][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:13.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:13.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:13.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:13.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.739][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:13.740][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:13.741][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.743][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.744][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:13.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:13.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.760][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-10 16:02:13.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-10 16:02:13.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.766][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-10 16:02:13.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-10 16:02:13.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.772][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-10 16:02:13.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-10 16:02:13.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.778][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-10 16:02:13.779][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-10 16:02:13.781][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.782][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.783][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-10 16:02:13.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-10 16:02:13.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.801][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-10 16:02:13.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-10 16:02:13.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.807][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-10 16:02:13.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-10 16:02:13.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.813][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-10 16:02:13.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-10 16:02:13.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.819][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-10 16:02:13.820][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-10 16:02:13.822][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.823][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.825][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-10 16:02:13.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-10 16:02:13.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.843][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:13.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:13.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.849][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:13.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:13.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.855][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:13.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:13.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.861][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:13.862][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:13.864][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.865][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.866][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:13.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:13.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.884][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:13.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:13.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.890][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:13.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:13.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.896][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:13.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:13.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.902][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:13.903][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:13.905][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.906][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.907][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:13.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:13.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.929][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-10 16:02:13.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-10 16:02:13.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.935][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-10 16:02:13.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-10 16:02:13.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.941][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-10 16:02:13.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-10 16:02:13.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.946][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-10 16:02:13.948][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-10 16:02:13.949][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.950][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.951][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-10 16:02:13.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-10 16:02:13.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.969][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-10 16:02:13.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-10 16:02:13.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.974][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-10 16:02:13.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-10 16:02:13.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.980][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-10 16:02:13.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-10 16:02:13.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.986][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-10 16:02:13.988][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-10 16:02:13.989][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.991][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:13.992][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-10 16:02:13.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-10 16:02:13.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:13.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.009][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:14.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:14.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.014][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:14.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:14.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.020][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:14.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:14.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.025][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:14.026][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:14.028][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.029][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.030][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:14.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:14.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.048][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-10 16:02:14.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-10 16:02:14.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.054][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-10 16:02:14.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-10 16:02:14.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.059][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-10 16:02:14.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-10 16:02:14.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.065][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-10 16:02:14.066][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-10 16:02:14.067][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.069][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.070][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-10 16:02:14.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-10 16:02:14.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.088][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-10 16:02:14.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-10 16:02:14.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.094][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-10 16:02:14.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-10 16:02:14.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.100][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-10 16:02:14.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-10 16:02:14.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.113][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-10 16:02:14.115][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-10 16:02:14.116][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.117][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.119][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-10 16:02:14.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-10 16:02:14.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.138][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-10 16:02:14.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-10 16:02:14.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.143][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-10 16:02:14.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-10 16:02:14.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.149][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-10 16:02:14.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-10 16:02:14.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.154][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-10 16:02:14.155][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-10 16:02:14.157][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.158][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.159][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-10 16:02:14.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-10 16:02:14.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.176][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:14.177][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:14.178][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.180][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.187][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-10 16:02:14.188][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-10 16:02:14.189][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.191][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.197][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-10 16:02:14.199][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-10 16:02:14.200][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.201][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.208][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-10 16:02:14.210][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-10 16:02:14.212][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.213][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.220][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-10 16:02:14.222][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-10 16:02:14.223][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.225][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.232][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:14.234][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:14.236][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.237][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.245][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:14.247][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:14.249][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.250][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.258][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:14.259][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:14.261][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.262][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.271][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-10 16:02:14.272][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-10 16:02:14.274][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.275][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.283][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-10 16:02:14.285][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-10 16:02:14.286][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.288][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.295][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-10 16:02:14.297][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-10 16:02:14.299][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.301][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.340][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-2528-content.xml".
biodb.DEBUG[2026-01-10 16:02:14.393][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-01-10 16:02:14.394][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-01-10 16:02:14.397][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-10 16:02:14.398][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-10 16:02:14.399][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-10 16:02:14.406][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:14.407][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:14.408][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:14.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-01-10 16:02:14.413][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:14.414][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:14.415][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.417][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:14.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:14.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.449][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-10 16:02:14.451][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-10 16:02:14.452][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.453][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.455][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-10 16:02:14.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-10 16:02:14.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.460][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-10 16:02:14.462][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-10 16:02:14.464][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.465][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.468][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-10 16:02:14.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-10 16:02:14.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.473][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-10 16:02:14.474][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-10 16:02:14.476][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.477][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.478][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-10 16:02:14.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-10 16:02:14.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.484][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-10 16:02:14.485][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-10 16:02:14.487][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.488][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.494][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-10 16:02:14.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-10 16:02:14.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.500][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:14.501][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:14.503][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.504][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.506][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:14.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:14.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.511][ef$get] Asked field names are: mass.
biodb.TRACE[2026-01-10 16:02:14.513][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:14.514][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.515][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.517][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-01-10 16:02:14.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:14.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.523][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:14.524][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:14.525][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.527][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.528][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:14.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:14.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.533][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-10 16:02:14.535][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-10 16:02:14.536][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.537][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.539][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-10 16:02:14.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-10 16:02:14.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.545][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-01-10 16:02:14.546][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-10 16:02:14.547][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.549][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.550][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-01-10 16:02:14.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-10 16:02:14.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.556][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-10 16:02:14.557][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-10 16:02:14.558][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.560][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.562][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-10 16:02:14.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-10 16:02:14.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.567][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:14.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:14.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.572][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:14.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:14.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:14.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:14.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.583][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:14.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:14.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.589][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:14.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:14.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.594][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:14.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:14.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.599][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:14.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:14.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:14.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:14.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.611][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:14.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:14.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.617][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:14.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:14.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-01-10 16:02:14.622][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 2528.
biodb.TRACE[2026-01-10 16:02:14.651][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-10 16:02:14.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-10 16:02:14.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.657][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-10 16:02:14.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-10 16:02:14.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.662][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-10 16:02:14.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-10 16:02:14.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.673][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-10 16:02:14.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-10 16:02:14.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.678][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:14.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:14.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.683][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:14.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:14.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.689][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-01-10 16:02:14.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-01-10 16:02:14.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.694][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-01-10 16:02:14.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-01-10 16:02:14.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.700][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-01-10 16:02:14.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-01-10 16:02:14.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.705][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-01-10 16:02:14.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-01-10 16:02:14.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.712][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:14.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:14.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.723][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:14.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:14.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.734][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:14.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:14.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.740][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:14.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:14.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:14.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:14.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:14.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:14.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:14.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:14.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:14.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:14.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.771][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:14.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:14.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.777][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:14.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:14.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.782][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:14.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:14.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.811][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:14.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:14.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:14.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:14.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.822][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:14.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:14.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.828][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:14.829][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:14.831][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.832][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.834][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:14.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:14.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.856][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:14.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:14.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.862][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:14.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:14.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.867][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:14.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:14.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.873][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:14.874][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:14.875][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.877][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.878][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:14.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:14.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.894][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-10 16:02:14.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-10 16:02:14.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.899][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-10 16:02:14.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-10 16:02:14.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.906][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-10 16:02:14.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-10 16:02:14.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.913][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-10 16:02:14.914][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-10 16:02:14.916][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.917][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.919][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-10 16:02:14.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-10 16:02:14.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.938][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-10 16:02:14.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-10 16:02:14.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.944][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-10 16:02:14.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-10 16:02:14.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.949][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-10 16:02:14.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-10 16:02:14.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.955][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-10 16:02:14.956][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-10 16:02:14.957][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.959][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.960][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-10 16:02:14.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-10 16:02:14.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.979][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-01-10 16:02:14.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:14.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.984][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:14.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:14.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.989][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:14.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:14.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:14.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:14.995][ef$get] Asked field names are: mass.
biodb.TRACE[2026-01-10 16:02:14.998][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:15.000][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.001][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.003][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-01-10 16:02:15.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:15.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.021][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:15.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:15.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.027][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:15.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:15.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.032][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:15.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:15.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.038][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:15.040][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:15.041][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.043][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.044][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:15.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:15.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.068][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:15.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:15.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.074][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:15.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:15.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.081][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:15.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:15.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.087][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:15.088][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:15.089][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.091][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.092][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:15.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:15.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.111][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-10 16:02:15.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-10 16:02:15.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.117][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-10 16:02:15.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-10 16:02:15.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.123][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-10 16:02:15.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-10 16:02:15.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.129][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-10 16:02:15.131][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-10 16:02:15.132][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.134][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.135][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-10 16:02:15.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-10 16:02:15.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.154][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-10 16:02:15.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-10 16:02:15.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.160][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-10 16:02:15.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-10 16:02:15.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.167][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-10 16:02:15.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-10 16:02:15.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.174][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-10 16:02:15.175][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-10 16:02:15.177][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.178][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.180][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-10 16:02:15.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-10 16:02:15.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.197][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:15.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:15.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.203][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:15.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:15.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.209][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:15.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:15.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.215][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:15.216][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:15.218][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.219][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.220][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:15.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:15.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.239][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-10 16:02:15.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-10 16:02:15.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.246][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-10 16:02:15.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-10 16:02:15.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.252][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-10 16:02:15.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-10 16:02:15.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.264][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-10 16:02:15.266][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-10 16:02:15.269][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.270][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.272][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-10 16:02:15.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-10 16:02:15.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.291][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-10 16:02:15.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-10 16:02:15.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.298][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-10 16:02:15.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-10 16:02:15.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.304][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-10 16:02:15.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-10 16:02:15.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.310][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-10 16:02:15.311][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-10 16:02:15.312][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.314][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.315][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-10 16:02:15.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-10 16:02:15.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.334][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-10 16:02:15.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-10 16:02:15.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.339][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-10 16:02:15.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-10 16:02:15.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.345][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-10 16:02:15.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-10 16:02:15.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.352][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-10 16:02:15.353][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-10 16:02:15.355][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.356][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.358][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-10 16:02:15.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-10 16:02:15.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.378][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:15.380][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:15.381][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.382][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.390][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-10 16:02:15.392][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-10 16:02:15.394][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.396][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.404][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-10 16:02:15.406][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-10 16:02:15.407][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.408][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.416][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-10 16:02:15.417][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-10 16:02:15.418][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.420][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.427][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-10 16:02:15.429][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-10 16:02:15.430][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.432][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.439][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:15.440][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:15.442][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.444][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.452][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:15.454][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:15.455][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.456][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.463][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:15.465][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:15.467][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.468][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.480][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-10 16:02:15.482][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-10 16:02:15.483][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.484][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.491][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-10 16:02:15.493][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-10 16:02:15.494][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.495][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.502][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-10 16:02:15.504][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-10 16:02:15.505][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.506][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.514][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-7799-content.xml".
biodb.DEBUG[2026-01-10 16:02:15.515][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-01-10 16:02:15.517][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-01-10 16:02:15.519][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-10 16:02:15.521][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-10 16:02:15.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-10 16:02:15.529][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:15.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:15.532][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:15.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-01-10 16:02:15.536][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:15.538][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:15.539][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.541][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.542][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:15.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:15.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.549][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-10 16:02:15.551][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-10 16:02:15.552][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.553][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.555][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-10 16:02:15.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-10 16:02:15.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.561][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-10 16:02:15.563][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-10 16:02:15.564][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.566][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.568][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-10 16:02:15.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-10 16:02:15.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.574][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-10 16:02:15.576][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-10 16:02:15.577][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.578][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.580][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-10 16:02:15.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-10 16:02:15.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.587][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-10 16:02:15.588][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-10 16:02:15.590][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.591][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.593][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-10 16:02:15.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-10 16:02:15.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.599][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:15.601][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:15.603][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.604][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.606][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:15.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:15.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.612][ef$get] Asked field names are: mass.
biodb.TRACE[2026-01-10 16:02:15.614][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:15.615][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.616][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.618][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-01-10 16:02:15.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:15.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.624][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:15.626][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:15.627][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.629][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.630][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:15.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:15.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.636][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-10 16:02:15.638][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-10 16:02:15.639][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.641][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.643][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-10 16:02:15.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-10 16:02:15.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.650][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-01-10 16:02:15.651][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-10 16:02:15.653][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.654][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.656][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-01-10 16:02:15.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-10 16:02:15.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.662][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-10 16:02:15.664][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-10 16:02:15.665][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.666][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.668][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-10 16:02:15.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-10 16:02:15.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.678][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:15.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:15.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.685][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:15.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:15.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.691][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:15.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:15.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.697][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:15.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:15.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.703][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:15.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:15.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.709][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:15.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:15.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:15.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:15.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:15.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:15.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:15.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:15.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.734][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:15.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:15.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-01-10 16:02:15.740][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 7799.
biodb.TRACE[2026-01-10 16:02:15.743][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-10 16:02:15.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-10 16:02:15.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.749][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-10 16:02:15.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-10 16:02:15.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.755][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-10 16:02:15.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-10 16:02:15.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.761][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-10 16:02:15.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-10 16:02:15.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.767][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:15.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:15.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.773][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:15.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:15.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.780][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-01-10 16:02:15.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-01-10 16:02:15.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.785][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-01-10 16:02:15.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-01-10 16:02:15.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.792][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-01-10 16:02:15.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-01-10 16:02:15.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.799][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-01-10 16:02:15.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-01-10 16:02:15.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:15.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:15.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.819][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:15.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:15.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.830][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:15.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:15.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.835][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:15.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:15.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:15.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:15.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.848][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:15.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:15.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:15.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:15.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:15.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:15.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.864][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:15.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:15.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.869][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:15.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:15.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.879][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:15.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:15.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.893][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:15.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:15.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.899][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:15.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:15.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.904][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:15.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:15.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.911][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:15.912][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:15.913][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.915][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.916][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:15.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:15.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.935][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-10 16:02:15.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-10 16:02:15.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.941][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-10 16:02:15.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-10 16:02:15.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.946][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-10 16:02:15.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-10 16:02:15.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.952][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-10 16:02:15.953][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-10 16:02:15.955][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.956][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.958][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-10 16:02:15.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-10 16:02:15.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.977][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-10 16:02:15.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-10 16:02:15.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.982][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-10 16:02:15.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-10 16:02:15.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.988][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-10 16:02:15.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-10 16:02:15.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:15.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:15.994][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-10 16:02:15.996][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-10 16:02:15.999][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.001][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.003][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-10 16:02:16.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-10 16:02:16.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.019][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-10 16:02:16.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-10 16:02:16.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.025][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-10 16:02:16.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-10 16:02:16.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.030][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-10 16:02:16.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-10 16:02:16.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.036][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-10 16:02:16.037][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-10 16:02:16.038][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.040][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.041][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-10 16:02:16.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-10 16:02:16.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.059][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:16.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:16.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.065][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:16.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:16.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.079][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:16.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:16.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.084][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:16.086][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:16.087][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.088][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.089][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:16.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:16.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.107][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:16.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:16.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.113][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:16.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:16.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.118][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:16.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:16.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.124][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:16.126][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:16.127][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.129][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.130][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:16.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:16.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.151][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:16.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:16.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.158][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:16.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:16.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.164][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:16.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:16.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.169][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:16.171][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:16.172][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.173][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.175][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:16.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:16.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.193][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-10 16:02:16.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-10 16:02:16.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.200][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-10 16:02:16.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-10 16:02:16.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.206][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-10 16:02:16.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-10 16:02:16.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.212][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-10 16:02:16.213][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-10 16:02:16.214][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.216][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.217][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-10 16:02:16.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-10 16:02:16.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.235][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-10 16:02:16.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-10 16:02:16.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.241][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-10 16:02:16.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-10 16:02:16.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.246][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-10 16:02:16.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-10 16:02:16.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.252][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-10 16:02:16.254][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-10 16:02:16.255][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.257][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.258][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-10 16:02:16.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-10 16:02:16.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.280][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-10 16:02:16.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-10 16:02:16.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.286][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-10 16:02:16.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-10 16:02:16.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.291][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-10 16:02:16.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-10 16:02:16.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.297][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-10 16:02:16.298][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-10 16:02:16.300][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.301][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.302][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-10 16:02:16.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-10 16:02:16.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.322][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-10 16:02:16.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-10 16:02:16.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.328][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-10 16:02:16.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-10 16:02:16.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.334][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-10 16:02:16.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-10 16:02:16.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.340][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-10 16:02:16.342][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-10 16:02:16.343][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.344][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.346][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-10 16:02:16.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-10 16:02:16.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.363][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:16.364][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:16.366][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.367][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.374][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-10 16:02:16.376][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-10 16:02:16.377][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.378][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.386][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-10 16:02:16.387][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-10 16:02:16.389][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.390][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.398][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-10 16:02:16.400][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-10 16:02:16.401][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.402][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.410][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-10 16:02:16.411][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-10 16:02:16.413][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.414][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.422][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:16.423][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-10 16:02:16.425][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.426][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.433][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:16.435][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-10 16:02:16.436][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.438][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.445][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:16.447][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:16.448][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.450][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.457][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-10 16:02:16.459][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-10 16:02:16.460][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.461][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.469][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-10 16:02:16.470][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-10 16:02:16.472][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.478][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:16.486][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-10 16:02:16.487][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-10 16:02:16.488][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:16.490][ef$get] fields variable is a list.
biodb.INFO [2026-01-10 16:02:16.502][biodb::testThat]
biodb.INFO [2026-01-10 16:02:16.503][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2026-01-10 16:02:16.505][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-10 16:02:16.506][biodb::testThat]
biodb.DEBUG[2026-01-10 16:02:16.509][private$loadEntries] Creating entries from ids [3]: "15440, 2528, 7799".
biodb.DEBUG[2026-01-10 16:02:16.578][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2026-01-10 16:02:16.583][cch$loadContents] Load 3 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2026-01-10 16:02:16.586][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2026-01-10 16:02:16.587][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2026-01-10 16:02:16.589][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2026-01-10 16:02:16.591][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2026-01-10 16:02:16.600][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-10 16:02:16.601][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-10 16:02:16.603][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-10 16:02:16.611][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:16.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:16.614][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:16.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2026-01-10 16:02:16.619][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
fscache.INFO [2026-01-10 16:02:16.651][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
sched.DEBUG[2026-01-10 16:02:16.652][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-10 16:02:16.654][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-10 16:02:16.656][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-10 16:02:23.379][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-10 16:02:23.380][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-10 16:02:23.382][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-10 16:02:23.384][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-10 16:02:24.234][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-10 16:02:24.236][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-10 16:02:24.237][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-10 16:02:24.239][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-10 16:02:24.617][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-10 16:02:24.618][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-10 16:02:24.620][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-10 16:02:24.621][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-10 16:02:25.009][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-10 16:02:25.011][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-10 16:02:25.012][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-10 16:02:25.014][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-10 16:02:25.390][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-10 16:02:25.392][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-10 16:02:25.394][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-10 16:02:25.395][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-10 16:02:25.783][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-10 16:02:25.784][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-10 16:02:25.785][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-10 16:02:25.787][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-10 16:02:26.164][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-10 16:02:26.165][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-10 16:02:26.167][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-10 16:02:26.169][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-10 16:02:26.557][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-10 16:02:26.559][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-10 16:02:26.560][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-10 16:02:26.562][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-10 16:02:26.938][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-10 16:02:26.940][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-10 16:02:26.941][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-10 16:02:26.943][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-10 16:02:27.332][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-10 16:02:27.333][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-10 16:02:27.334][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-10 16:02:27.336][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-10 16:02:27.712][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-10 16:02:27.713][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-10 16:02:27.714][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-10 16:02:27.716][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-10 16:02:28.343][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-10 16:02:28.344][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-10 16:02:28.346][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-10 16:02:28.362][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-10 16:02:28.737][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-10 16:02:28.738][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-10 16:02:28.739][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-10 16:02:28.740][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-10 16:02:29.342][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-10 16:02:29.343][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-10 16:02:29.344][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-10 16:02:29.346][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-10 16:02:29.722][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-10 16:02:29.724][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-10 16:02:29.725][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-10 16:02:29.727][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-10 16:02:30.115][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-10 16:02:30.116][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-10 16:02:30.117][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-10 16:02:30.119][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-10 16:02:30.494][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-10 16:02:30.495][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-10 16:02:30.497][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-10 16:02:30.498][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-10 16:02:31.135][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-10 16:02:31.137][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-10 16:02:31.138][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-10 16:02:31.140][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-10 16:02:31.515][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-10 16:02:31.516][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-10 16:02:31.517][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-10 16:02:31.519][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-10 16:02:31.939][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
biodb.DEBUG[2026-01-10 16:02:31.942][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-10 16:02:31.944][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-10 16:02:31.946][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-10 16:02:31.956][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:31.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:31.959][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:31.960][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2026-01-10 16:02:31.985][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
fscache.INFO [2026-01-10 16:02:32.032][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
sched.DEBUG[2026-01-10 16:02:32.065][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-10 16:02:32.067][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-10 16:02:32.069][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-10 16:02:32.445][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-10 16:02:32.447][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-10 16:02:32.449][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-10 16:02:32.450][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-10 16:02:33.077][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-10 16:02:33.079][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-10 16:02:33.080][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-10 16:02:33.082][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-10 16:02:33.458][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-10 16:02:33.459][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-10 16:02:33.461][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-10 16:02:33.462][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-10 16:02:34.096][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-10 16:02:34.098][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-10 16:02:34.099][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-10 16:02:34.101][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-10 16:02:34.477][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-10 16:02:34.478][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-10 16:02:34.479][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-10 16:02:34.481][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-10 16:02:35.109][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-10 16:02:35.110][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-10 16:02:35.112][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-10 16:02:35.113][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-10 16:02:35.492][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-10 16:02:35.493][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-10 16:02:35.494][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-10 16:02:35.496][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-10 16:02:36.128][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-10 16:02:36.130][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-10 16:02:36.131][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-10 16:02:36.133][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-10 16:02:36.510][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-10 16:02:36.511][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-10 16:02:36.513][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-10 16:02:36.514][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-10 16:02:36.902][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-10 16:02:36.903][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-10 16:02:36.905][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-10 16:02:36.907][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-10 16:02:37.283][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-10 16:02:37.284][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-10 16:02:37.286][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-10 16:02:37.287][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-10 16:02:37.674][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-10 16:02:37.676][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-10 16:02:37.677][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-10 16:02:37.679][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-10 16:02:38.055][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-10 16:02:38.056][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-10 16:02:38.057][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-10 16:02:38.059][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-10 16:02:38.693][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-10 16:02:38.695][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-10 16:02:38.696][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-10 16:02:38.698][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-10 16:02:39.073][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-10 16:02:39.075][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-10 16:02:39.076][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-10 16:02:39.078][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-10 16:02:39.714][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-10 16:02:39.716][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-10 16:02:39.717][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-10 16:02:39.719][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-10 16:02:40.098][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-10 16:02:40.100][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-10 16:02:40.102][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-10 16:02:40.104][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-10 16:02:40.493][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-10 16:02:40.495][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-10 16:02:40.496][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-10 16:02:40.499][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-10 16:02:40.881][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-10 16:02:40.883][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-10 16:02:40.884][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-10 16:02:40.886][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-10 16:02:41.274][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
biodb.DEBUG[2026-01-10 16:02:41.276][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-10 16:02:41.277][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-10 16:02:41.278][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-10 16:02:41.286][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:41.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:41.289][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:41.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2026-01-10 16:02:41.292][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
fscache.INFO [2026-01-10 16:02:41.295][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
sched.DEBUG[2026-01-10 16:02:41.296][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-10 16:02:41.297][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-10 16:02:41.299][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-10 16:02:41.674][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-10 16:02:41.676][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-10 16:02:41.677][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-10 16:02:41.678][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-10 16:02:42.066][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-10 16:02:42.067][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-10 16:02:42.069][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-10 16:02:42.070][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-10 16:02:42.450][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-10 16:02:42.452][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-10 16:02:42.454][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-10 16:02:42.456][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-10 16:02:43.078][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-10 16:02:43.080][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-10 16:02:43.082][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-10 16:02:43.092][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-10 16:02:43.492][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-10 16:02:43.494][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-10 16:02:43.495][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-10 16:02:43.496][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-10 16:02:44.127][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-10 16:02:44.129][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-10 16:02:44.130][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-10 16:02:44.133][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-10 16:02:44.508][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-10 16:02:44.509][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-10 16:02:44.511][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-10 16:02:44.512][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-10 16:02:45.111][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-10 16:02:45.113][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-10 16:02:45.114][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-10 16:02:45.117][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-10 16:02:45.492][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-10 16:02:45.494][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-10 16:02:45.496][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-10 16:02:45.498][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-10 16:02:46.109][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-10 16:02:46.111][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-10 16:02:46.113][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-10 16:02:46.116][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-10 16:02:46.492][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-10 16:02:46.493][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-10 16:02:46.495][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-10 16:02:46.496][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-10 16:02:47.079][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-10 16:02:47.080][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-10 16:02:47.082][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-10 16:02:47.084][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-10 16:02:47.461][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-10 16:02:47.463][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-10 16:02:47.464][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-10 16:02:47.466][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-10 16:02:47.854][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-10 16:02:47.856][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-10 16:02:47.857][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-10 16:02:47.859][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-10 16:02:48.235][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-10 16:02:48.237][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-10 16:02:48.239][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-10 16:02:48.240][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-10 16:02:48.862][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-10 16:02:48.863][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-10 16:02:48.864][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-10 16:02:48.866][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-10 16:02:49.242][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-10 16:02:49.243][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-10 16:02:49.245][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-10 16:02:49.246][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-10 16:02:49.636][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-10 16:02:49.637][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-10 16:02:49.639][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-10 16:02:49.641][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-10 16:02:50.017][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-10 16:02:50.019][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-10 16:02:50.020][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-10 16:02:50.022][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-10 16:02:50.410][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
fscache.INFO [2026-01-10 16:02:50.413][cch$saveContents] Save 3 contents to /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2026-01-10 16:02:50.415][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2026-01-10 16:02:50.417][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2026-01-10 16:02:50.418][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2026-01-10 16:02:50.421][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-10 16:02:50.422][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-10 16:02:50.424][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-10 16:02:50.431][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:50.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:50.434][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:50.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-01-10 16:02:50.438][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:50.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:50.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:50.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:50.444][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:50.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:50.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:50.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:50.449][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:50.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:50.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:50.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-01-10 16:02:50.455][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-10 16:02:50.456][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-10 16:02:50.457][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-10 16:02:50.464][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:50.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:50.467][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:50.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-01-10 16:02:50.471][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:50.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:50.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:50.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:50.477][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:50.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:50.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:50.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:50.484][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:50.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:50.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:50.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-01-10 16:02:50.489][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-10 16:02:50.490][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-10 16:02:50.492][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-10 16:02:50.517][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:50.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:50.519][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:50.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-01-10 16:02:50.523][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:50.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:50.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:50.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:50.530][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-10 16:02:50.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-10 16:02:50.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:50.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:50.536][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:50.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:50.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:50.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:50.542][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:50.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:50.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:50.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:50.552][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:50.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:50.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:50.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:50.563][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:50.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:50.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:50.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:50.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:50.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:50.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:50.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:50.579][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:50.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:50.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:50.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:50.585][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:50.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:50.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:50.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:50.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:50.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:50.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:50.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:50.598][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:50.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:50.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:50.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:50.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:50.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:50.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:50.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:50.612][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:50.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:50.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:50.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:50.618][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:50.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:50.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:50.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:50.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:50.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:50.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:50.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:50.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:50.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:50.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:50.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:50.635][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:50.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:50.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:50.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:50.641][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-10 16:02:50.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-10 16:02:50.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:50.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-01-10 16:02:50.646][self$createEntryFromContent] Accession numbers: NA, NA, NA.
biodb.DEBUG[2026-01-10 16:02:50.648][self$createEntryFromContent] Found 3 entry/ies without an accession number. Set it/them to NULL.
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-10 16:02:50.865][biodb::testThat]
biodb.INFO [2026-01-10 16:02:50.867][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2026-01-10 16:02:50.868][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-10 16:02:50.869][biodb::testThat]
biodb.TRACE[2026-01-10 16:02:50.888][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-10 16:02:50.890][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-10 16:02:50.893][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:50.895][ef$get] fields variable is a list.
biodb.DEBUG[2026-01-10 16:02:50.897][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-10 16:02:51.314][biodb::testThat]
biodb.INFO [2026-01-10 16:02:51.315][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2026-01-10 16:02:51.316][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-10 16:02:51.318][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-10 16:02:51.613][biodb::testThat]
biodb.INFO [2026-01-10 16:02:51.615][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2026-01-10 16:02:51.616][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-10 16:02:51.618][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-10 16:02:51.827][biodb::testThat]
biodb.INFO [2026-01-10 16:02:51.830][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2026-01-10 16:02:51.833][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-10 16:02:51.835][biodb::testThat]
biodb.INFO [2026-01-10 16:02:51.859][biodb::testThat]
biodb.INFO [2026-01-10 16:02:51.862][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2026-01-10 16:02:51.864][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-10 16:02:51.867][biodb::testThat]
biodb.INFO [2026-01-10 16:02:51.887][biodb::testThat]
biodb.INFO [2026-01-10 16:02:51.890][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2026-01-10 16:02:51.892][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-10 16:02:51.895][biodb::testThat]
biodb.DEBUG[2026-01-10 16:02:51.902][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2026-01-10 16:02:52.465][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2026-01-10 16:02:52.871][biodb::testThat]
biodb.INFO [2026-01-10 16:02:52.873][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2026-01-10 16:02:52.876][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-10 16:02:52.878][biodb::testThat]
biodb.TRACE[2026-01-10 16:02:52.922][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-10 16:02:52.925][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-10 16:02:52.926][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:52.928][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:52.929][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:52.931][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:52.932][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:52.934][ef$get] fields variable is a list.
biodb.INFO [2026-01-10 16:02:52.937][biodb::testThat]
biodb.INFO [2026-01-10 16:02:52.938][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2026-01-10 16:02:52.940][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-10 16:02:52.942][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-10 16:02:53.118][biodb::testThat]
biodb.INFO [2026-01-10 16:02:53.119][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2026-01-10 16:02:53.120][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-10 16:02:53.122][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-10 16:02:53.184][biodb::testThat]
biodb.INFO [2026-01-10 16:02:53.185][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2026-01-10 16:02:53.187][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-10 16:02:53.188][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-10 16:02:53.251][biodb::testThat]
biodb.INFO [2026-01-10 16:02:53.253][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2026-01-10 16:02:53.254][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-10 16:02:53.255][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.TRACE[2026-01-10 16:02:53.343][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-10 16:02:53.345][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-10 16:02:53.346][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:53.348][ef$get] fields variable is a list.
biodb.TRACE[2026-01-10 16:02:53.349][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:53.351][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-10 16:02:53.352][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-10 16:02:53.353][ef$get] fields variable is a list.
biodb.INFO [2026-01-10 16:02:53.355][biodb::testThat]
biodb.INFO [2026-01-10 16:02:53.357][biodb::testThat] Running test function  test.annotateMzValues_real_values  (" annotateMzValues() works correctly with real values. ").
biodb.INFO [2026-01-10 16:02:53.358][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-10 16:02:53.359][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-10 16:02:53.425][biodb::testThat]
biodb.INFO [2026-01-10 16:02:53.426][biodb::testThat] Running test function  test_annotateMzValues_additional_fields  (" Additional fields are accepted in annotateMzValues() ").
biodb.INFO [2026-01-10 16:02:53.428][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-10 16:02:53.429][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-10 16:02:53.494][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2026-01-10 16:02:53.496][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2026-01-10 16:02:53.497][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2026-01-10 16:02:53.498][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-10 16:02:53.500][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-10 16:02:53.501][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-10 16:02:53.502][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-10 16:02:53.503][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2026-01-10 16:02:53.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ 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)