Back to Long Tests report for BioC 3.22

This page was generated on 2026-02-07 23:55 -0500 (Sat, 07 Feb 2026).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.2 (2025-10-31) -- "[Not] Part in a Rumble" 4888
merida1macOS 12.7.6 Montereyx86_644.5.2 (2025-10-31) -- "[Not] Part in a Rumble" 4678
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: 2026-02-07 09:55 -0500 (Sat, 07 Feb 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: 2026-02-07 16:01:18 -0500 (Sat, 07 Feb 2026)
EndedAt: 2026-02-07 16:02:44 -0500 (Sat, 07 Feb 2026)
EllapsedTime: 86.6 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 [2026-02-07 16:02:10.875][biodb::testContext]
biodb.INFO [2026-02-07 16:02:10.879][biodb::testContext] ********************************************************************************
biodb.INFO [2026-02-07 16:02:10.880][biodb::testContext] Test context - Generic long tests
biodb.INFO [2026-02-07 16:02:10.882][biodb::testContext] ********************************************************************************
biodb.INFO [2026-02-07 16:02:10.883][biodb::testContext]
biodb.INFO [2026-02-07 16:02:10.890][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2026-02-07 16:02:10.893][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2026-02-07 16:02:10.902][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-02-07 16:02:10.903][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2026-02-07 16:02:10.905][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2026-02-07 16:02:10.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:10.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:10.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:10.909][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2026-02-07 16:02:10.934][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2026-02-07 16:02:10.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:10.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:10.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:10.939][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2026-02-07 16:02:10.940][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2026-02-07 16:02:10.942][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:10.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:10.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:10.945][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2026-02-07 16:02:10.947][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2026-02-07 16:02:10.948][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2026-02-07 16:02:10.949][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:10.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:10.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:10.953][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2026-02-07 16:02:10.954][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2026-02-07 16:02:10.955][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2026-02-07 16:02:10.957][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:10.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:10.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:10.960][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2026-02-07 16:02:10.962][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2026-02-07 16:02:10.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:10.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:10.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:10.966][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2026-02-07 16:02:10.968][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2026-02-07 16:02:10.969][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2026-02-07 16:02:10.970][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:10.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:10.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:10.974][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2026-02-07 16:02:10.975][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2026-02-07 16:02:10.977][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:10.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:10.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:10.980][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2026-02-07 16:02:10.982][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2026-02-07 16:02:10.983][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2026-02-07 16:02:10.984][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:10.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:10.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:10.988][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2026-02-07 16:02:10.989][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2026-02-07 16:02:10.991][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2026-02-07 16:02:10.992][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2026-02-07 16:02:10.993][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2026-02-07 16:02:10.995][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2026-02-07 16:02:10.996][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:10.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:10.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.000][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2026-02-07 16:02:11.001][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2026-02-07 16:02:11.002][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.006][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2026-02-07 16:02:11.007][self$set] Set key entries.sep to "|".
biodb.DEBUG[2026-02-07 16:02:11.008][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.011][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.012][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2026-02-07 16:02:11.013][self$set] Set key offline to FALSE.
biodb.DEBUG[2026-02-07 16:02:11.015][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.024][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2026-02-07 16:02:11.026][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2026-02-07 16:02:11.027][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2026-02-07 16:02:11.028][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.032][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2026-02-07 16:02:11.033][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2026-02-07 16:02:11.044][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2026-02-07 16:02:11.045][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.049][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2026-02-07 16:02:11.050][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2026-02-07 16:02:11.052][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2026-02-07 16:02:11.053][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.059][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2026-02-07 16:02:11.102][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-02-07 16:02:11.124][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2026-02-07 16:02:11.126][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-02-07 16:02:11.127][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-02-07 16:02:11.128][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-02-07 16:02:11.129][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-02-07 16:02:11.131][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-02-07 16:02:11.132][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-02-07 16:02:11.133][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2026-02-07 16:02:11.135][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-02-07 16:02:11.136][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-02-07 16:02:11.137][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2026-02-07 16:02:11.139][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-02-07 16:02:11.140][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-02-07 16:02:11.142][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-02-07 16:02:11.143][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-02-07 16:02:11.143][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-02-07 16:02:11.143][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-02-07 16:02:11.143][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2026-02-07 16:02:11.143][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2026-02-07 16:02:11.144][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-02-07 16:02:11.146][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-02-07 16:02:11.147][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-02-07 16:02:11.148][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-02-07 16:02:11.150][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-02-07 16:02:11.151][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-02-07 16:02:11.152][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-02-07 16:02:11.154][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-02-07 16:02:11.155][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-02-07 16:02:11.156][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-02-07 16:02:11.158][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-02-07 16:02:11.159][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-02-07 16:02:11.161][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2026-02-07 16:02:11.163][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-02-07 16:02:11.165][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2026-02-07 16:02:11.166][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-02-07 16:02:11.167][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-02-07 16:02:11.169][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-02-07 16:02:11.170][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-02-07 16:02:11.171][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-02-07 16:02:11.172][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-02-07 16:02:11.174][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2026-02-07 16:02:11.175][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-02-07 16:02:11.176][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-02-07 16:02:11.178][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2026-02-07 16:02:11.179][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-02-07 16:02:11.180][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-02-07 16:02:11.182][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-02-07 16:02:11.183][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-02-07 16:02:11.183][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-02-07 16:02:11.183][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-02-07 16:02:11.183][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2026-02-07 16:02:11.183][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2026-02-07 16:02:11.184][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-02-07 16:02:11.186][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-02-07 16:02:11.187][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-02-07 16:02:11.188][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-02-07 16:02:11.189][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-02-07 16:02:11.190][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-02-07 16:02:11.191][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-02-07 16:02:11.193][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-02-07 16:02:11.194][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-02-07 16:02:11.195][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-02-07 16:02:11.196][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-02-07 16:02:11.197][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-02-07 16:02:11.199][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2026-02-07 16:02:11.201][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2026-02-07 16:02:11.202][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2026-02-07 16:02:11.204][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-02-07 16:02:11.205][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-02-07 16:02:11.206][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-02-07 16:02:11.207][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-02-07 16:02:11.209][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-02-07 16:02:11.210][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-02-07 16:02:11.211][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2026-02-07 16:02:11.212][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-02-07 16:02:11.214][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2026-02-07 16:02:11.215][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2026-02-07 16:02:11.216][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-02-07 16:02:11.217][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-02-07 16:02:11.219][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-02-07 16:02:11.220][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2026-02-07 16:02:11.221][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-02-07 16:02:11.222][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-02-07 16:02:11.224][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-02-07 16:02:11.225][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-02-07 16:02:11.226][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-02-07 16:02:11.227][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-02-07 16:02:11.228][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-02-07 16:02:11.230][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-02-07 16:02:11.231][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-02-07 16:02:11.232][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-02-07 16:02:11.233][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-02-07 16:02:11.235][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-02-07 16:02:11.236][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2026-02-07 16:02:11.238][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2026-02-07 16:02:11.240][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2026-02-07 16:02:11.241][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-02-07 16:02:11.242][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-02-07 16:02:11.244][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-02-07 16:02:11.245][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-02-07 16:02:11.246][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-02-07 16:02:11.248][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-02-07 16:02:11.249][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2026-02-07 16:02:11.250][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-02-07 16:02:11.252][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2026-02-07 16:02:11.253][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2026-02-07 16:02:11.254][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-02-07 16:02:11.256][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-02-07 16:02:11.257][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-02-07 16:02:11.258][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2026-02-07 16:02:11.260][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-02-07 16:02:11.261][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-02-07 16:02:11.262][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-02-07 16:02:11.263][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-02-07 16:02:11.264][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-02-07 16:02:11.266][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-02-07 16:02:11.267][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-02-07 16:02:11.268][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-02-07 16:02:11.269][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-02-07 16:02:11.271][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-02-07 16:02:11.272][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-02-07 16:02:11.278][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-02-07 16:02:11.282][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-02-07 16:02:11.284][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.286][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:11.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:11.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.291][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.292][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:11.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:11.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.297][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:11.300][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:11.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.303][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:11.305][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:11.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.309][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:11.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:11.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.314][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:11.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:11.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.320][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:11.322][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:11.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.326][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:11.328][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:11.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.332][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:11.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:11.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.336][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.338][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:11.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:11.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.342][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.343][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:11.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:11.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.349][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:11.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:11.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.355][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:11.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:11.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.360][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:11.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:11.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.366][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:11.368][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:11.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.373][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:11.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:11.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.379][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2026-02-07 16:02:11.384][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2026-02-07 16:02:11.385][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2026-02-07 16:02:11.387][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2026-02-07 16:02:11.389][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2026-02-07 16:02:11.391][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2026-02-07 16:02:11.393][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2026-02-07 16:02:11.395][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2026-02-07 16:02:11.397][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2026-02-07 16:02:11.398][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2026-02-07 16:02:11.400][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2026-02-07 16:02:11.402][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2026-02-07 16:02:11.403][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2026-02-07 16:02:11.405][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2026-02-07 16:02:11.407][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2026-02-07 16:02:11.409][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2026-02-07 16:02:11.410][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2026-02-07 16:02:11.412][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2026-02-07 16:02:11.414][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2026-02-07 16:02:11.415][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2026-02-07 16:02:11.417][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2026-02-07 16:02:11.419][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2026-02-07 16:02:11.421][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2026-02-07 16:02:11.422][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2026-02-07 16:02:11.424][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2026-02-07 16:02:11.426][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2026-02-07 16:02:11.427][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2026-02-07 16:02:11.429][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2026-02-07 16:02:11.431][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2026-02-07 16:02:11.433][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2026-02-07 16:02:11.435][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2026-02-07 16:02:11.436][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2026-02-07 16:02:11.438][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2026-02-07 16:02:11.440][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2026-02-07 16:02:11.442][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2026-02-07 16:02:11.443][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2026-02-07 16:02:11.445][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2026-02-07 16:02:11.447][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2026-02-07 16:02:11.448][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2026-02-07 16:02:11.450][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2026-02-07 16:02:11.452][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2026-02-07 16:02:11.453][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2026-02-07 16:02:11.455][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2026-02-07 16:02:11.457][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2026-02-07 16:02:11.459][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2026-02-07 16:02:11.460][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2026-02-07 16:02:11.462][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2026-02-07 16:02:11.464][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2026-02-07 16:02:11.466][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2026-02-07 16:02:11.467][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2026-02-07 16:02:11.469][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2026-02-07 16:02:11.471][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2026-02-07 16:02:11.472][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2026-02-07 16:02:11.474][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2026-02-07 16:02:11.476][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2026-02-07 16:02:11.478][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2026-02-07 16:02:11.479][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2026-02-07 16:02:11.481][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2026-02-07 16:02:11.483][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2026-02-07 16:02:11.485][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2026-02-07 16:02:11.486][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2026-02-07 16:02:11.488][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2026-02-07 16:02:11.490][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2026-02-07 16:02:11.492][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2026-02-07 16:02:11.493][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2026-02-07 16:02:11.495][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2026-02-07 16:02:11.497][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2026-02-07 16:02:11.498][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2026-02-07 16:02:11.500][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2026-02-07 16:02:11.502][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2026-02-07 16:02:11.504][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2026-02-07 16:02:11.506][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2026-02-07 16:02:11.507][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2026-02-07 16:02:11.509][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2026-02-07 16:02:11.516][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2026-02-07 16:02:11.518][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2026-02-07 16:02:11.519][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2026-02-07 16:02:11.521][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2026-02-07 16:02:11.523][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2026-02-07 16:02:11.525][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2026-02-07 16:02:11.526][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2026-02-07 16:02:11.528][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2026-02-07 16:02:11.530][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2026-02-07 16:02:11.538][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2026-02-07 16:02:11.540][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2026-02-07 16:02:11.543][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-02-07 16:02:11.544][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:11.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:11.547][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.554][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-07 16:02:11.557][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-07 16:02:11.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:11.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:11.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.562][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-07 16:02:11.564][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-07 16:02:11.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:11.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:11.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.570][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-07 16:02:11.572][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-07 16:02:11.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:11.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:11.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.578][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-07 16:02:11.580][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-07 16:02:11.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:11.583][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:11.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.586][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-07 16:02:11.588][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-07 16:02:11.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:11.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:11.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-07 16:02:11.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-07 16:02:11.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:11.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:11.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.602][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-07 16:02:11.604][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-07 16:02:11.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:11.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:11.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-07 16:02:11.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-07 16:02:11.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:11.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:11.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.616][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".
biodb.DEBUG[2026-02-07 16:02:11.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-07 16:02:11.620][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-07 16:02:11.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:11.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:11.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-07 16:02:11.628][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-07 16:02:11.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:11.630][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:11.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.632][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.633][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-07 16:02:11.635][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-07 16:02:11.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:11.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:11.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.641][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-07 16:02:11.643][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-07 16:02:11.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:11.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:11.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.648][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.649][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-07 16:02:11.651][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-07 16:02:11.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:11.653][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:11.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.657][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-07 16:02:11.659][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-07 16:02:11.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:11.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:11.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.665][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-07 16:02:11.667][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-07 16:02:11.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:11.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:11.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.673][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-07 16:02:11.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-07 16:02:11.675][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-07 16:02:11.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:11.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:11.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-07 16:02:11.682][biodb$loadDefinitions] Load definitions from file "/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/definitions.yml".
biodb.DEBUG[2026-02-07 16:02:11.695][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2026-02-07 16:02:11.697][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-02-07 16:02:11.698][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2026-02-07 16:02:11.700][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-02-07 16:02:11.701][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-02-07 16:02:11.702][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-02-07 16:02:11.703][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-02-07 16:02:11.705][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2026-02-07 16:02:11.706][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2026-02-07 16:02:11.708][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2026-02-07 16:02:11.709][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-02-07 16:02:11.710][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-02-07 16:02:11.711][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2026-02-07 16:02:11.713][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-02-07 16:02:11.714][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2026-02-07 16:02:11.714][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2026-02-07 16:02:11.714][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2026-02-07 16:02:11.714][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2026-02-07 16:02:11.714][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2026-02-07 16:02:11.714][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2026-02-07 16:02:11.714][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2026-02-07 16:02:11.714][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2026-02-07 16:02:11.714][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2026-02-07 16:02:11.714][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2026-02-07 16:02:11.714][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2026-02-07 16:02:11.715][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2026-02-07 16:02:11.717][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-02-07 16:02:11.717][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-02-07 16:02:11.717][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-02-07 16:02:11.718][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2026-02-07 16:02:11.719][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-02-07 16:02:11.721][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-02-07 16:02:11.722][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-02-07 16:02:11.723][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-02-07 16:02:11.724][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-02-07 16:02:11.725][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-02-07 16:02:11.727][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2026-02-07 16:02:11.727][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2026-02-07 16:02:11.728][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-02-07 16:02:11.729][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-02-07 16:02:11.730][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2026-02-07 16:02:11.732][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2026-02-07 16:02:11.732][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2026-02-07 16:02:11.739][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2026-02-07 16:02:11.742][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2026-02-07 16:02:11.747][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2026-02-07 16:02:11.749][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2026-02-07 16:02:11.751][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2026-02-07 16:02:11.753][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2026-02-07 16:02:11.776][super$initialize] Initialize connector chebi.
biodb.DEBUG[2026-02-07 16:02:11.794][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2026-02-07 16:02:11.804][biodb::testThat]
biodb.INFO [2026-02-07 16:02:11.805][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2026-02-07 16:02:11.806][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-07 16:02:11.807][biodb::testThat]
biodb.TRACE[2026-02-07 16:02:11.812][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2026-02-07 16:02:11.814][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-02-07 16:02:11.818][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-02-07 16:02:11.827][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-02-07 16:02:11.828][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-07 16:02:11.829][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-07 16:02:11.846][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:11.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:11.848][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:11.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-02-07 16:02:11.858][ef$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:11.860][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:11.861][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:11.862][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:11.864][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:11.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:11.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:11.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:11.886][ef$get] Asked field names are: charge.
biodb.TRACE[2026-02-07 16:02:11.887][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-07 16:02:11.889][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:11.890][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:11.926][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-07 16:02:11.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-07 16:02:11.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:11.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:11.932][ef$get] Asked field names are: formula.
biodb.TRACE[2026-02-07 16:02:11.933][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-07 16:02:11.935][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:11.936][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:11.937][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-07 16:02:11.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-07 16:02:11.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:11.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:11.943][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-02-07 16:02:11.944][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-07 16:02:11.945][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:11.947][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:11.948][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-07 16:02:11.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-07 16:02:11.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:11.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:11.954][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-07 16:02:11.955][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-07 16:02:11.956][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:11.957][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:11.959][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-07 16:02:11.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-07 16:02:11.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:11.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:11.964][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:11.965][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:11.966][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:11.967][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:11.969][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:11.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:11.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:11.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:11.974][ef$get] Asked field names are: mass.
biodb.TRACE[2026-02-07 16:02:11.975][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:11.977][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:11.978][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:11.979][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-02-07 16:02:11.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:11.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:11.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:11.984][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:11.986][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:11.987][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:11.988][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.000][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:12.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:12.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.005][ef$get] Asked field names are: name.
biodb.TRACE[2026-02-07 16:02:12.006][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-02-07 16:02:12.007][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.008][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.010][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-07 16:02:12.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-07 16:02:12.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.015][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-02-07 16:02:12.017][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-07 16:02:12.018][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.019][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.021][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-02-07 16:02:12.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-07 16:02:12.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.026][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-02-07 16:02:12.027][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-07 16:02:12.028][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.029][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.031][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-07 16:02:12.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-07 16:02:12.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.036][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:12.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:12.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.041][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:12.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:12.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:12.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:12.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:12.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:12.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.056][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:12.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:12.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.061][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:12.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:12.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:12.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:12.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:12.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:12.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.119][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:12.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:12.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:12.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:12.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-02-07 16:02:12.129][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2026-02-07 16:02:12.132][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-07 16:02:12.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-07 16:02:12.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.137][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-07 16:02:12.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-07 16:02:12.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.207][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-07 16:02:12.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-07 16:02:12.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.212][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-07 16:02:12.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-07 16:02:12.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.217][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:12.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:12.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.222][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:12.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:12.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.227][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-02-07 16:02:12.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-02-07 16:02:12.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.232][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-02-07 16:02:12.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-02-07 16:02:12.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.237][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-02-07 16:02:12.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-02-07 16:02:12.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.242][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-02-07 16:02:12.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-02-07 16:02:12.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.249][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:12.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:12.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.271][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:12.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:12.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.282][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:12.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:12.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:12.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:12.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:12.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:12.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:12.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:12.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:12.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:12.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:12.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:12.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.315][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:12.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:12.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.320][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:12.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:12.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.325][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:12.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:12.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.339][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:12.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:12.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.344][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:12.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:12.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.350][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:12.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:12.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.355][ef$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:12.356][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:12.357][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.359][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.360][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:12.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:12.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.376][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:12.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:12.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.381][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:12.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:12.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.386][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:12.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:12.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.391][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:12.393][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:12.394][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.395][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.396][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:12.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:12.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.417][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-07 16:02:12.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-07 16:02:12.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.423][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-07 16:02:12.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-07 16:02:12.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.428][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-07 16:02:12.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-07 16:02:12.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.434][ef$get] Asked field names are: name.
biodb.TRACE[2026-02-07 16:02:12.435][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-02-07 16:02:12.437][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.438][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.439][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-07 16:02:12.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-07 16:02:12.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.456][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-07 16:02:12.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-07 16:02:12.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.462][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-07 16:02:12.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-07 16:02:12.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.467][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-07 16:02:12.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-07 16:02:12.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.472][ef$get] Asked field names are: formula.
biodb.TRACE[2026-02-07 16:02:12.474][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-07 16:02:12.475][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.476][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.478][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-07 16:02:12.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-07 16:02:12.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.495][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:12.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:12.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.501][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:12.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:12.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.506][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:12.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:12.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.512][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:12.513][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:12.514][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.515][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.517][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:12.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:12.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.532][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:12.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:12.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.537][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:12.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:12.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.542][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:12.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:12.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.547][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:12.549][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:12.550][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.551][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.552][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:12.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:12.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.568][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-07 16:02:12.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-07 16:02:12.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.574][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-07 16:02:12.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-07 16:02:12.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.579][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-07 16:02:12.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-07 16:02:12.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.584][ef$get] Asked field names are: charge.
biodb.TRACE[2026-02-07 16:02:12.585][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-07 16:02:12.586][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.587][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.589][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-07 16:02:12.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-07 16:02:12.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.609][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-07 16:02:12.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-07 16:02:12.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.614][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-07 16:02:12.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-07 16:02:12.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.619][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-07 16:02:12.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-07 16:02:12.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.624][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-07 16:02:12.626][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-07 16:02:12.627][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.628][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.629][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-07 16:02:12.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-07 16:02:12.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.645][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:12.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:12.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.650][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:12.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:12.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.656][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:12.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:12.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.661][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:12.662][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:12.663][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.664][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.666][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:12.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:12.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.681][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-07 16:02:12.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-07 16:02:12.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.687][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-07 16:02:12.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-07 16:02:12.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.692][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-07 16:02:12.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-07 16:02:12.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.697][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-02-07 16:02:12.698][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-07 16:02:12.700][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.701][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.702][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-07 16:02:12.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-07 16:02:12.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.718][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-07 16:02:12.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-07 16:02:12.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.723][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-07 16:02:12.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-07 16:02:12.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.728][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-07 16:02:12.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-07 16:02:12.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.733][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-07 16:02:12.734][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-07 16:02:12.736][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.737][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.738][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-07 16:02:12.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-07 16:02:12.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.754][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-07 16:02:12.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-07 16:02:12.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.759][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-07 16:02:12.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-07 16:02:12.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.764][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-07 16:02:12.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-07 16:02:12.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.769][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-02-07 16:02:12.770][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-07 16:02:12.772][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.773][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.774][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-07 16:02:12.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-07 16:02:12.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.790][ef$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:12.791][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:12.793][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.794][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.800][ef$get] Asked field names are: charge.
biodb.TRACE[2026-02-07 16:02:12.802][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-07 16:02:12.808][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.809][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.815][ef$get] Asked field names are: formula.
biodb.TRACE[2026-02-07 16:02:12.817][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-07 16:02:12.818][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.819][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.826][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-02-07 16:02:12.827][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-07 16:02:12.829][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.830][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.836][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-07 16:02:12.838][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-07 16:02:12.839][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.840][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.847][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:12.848][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:12.849][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.851][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.857][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:12.859][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:12.860][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.861][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.868][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:12.869][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:12.870][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.872][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.878][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-07 16:02:12.880][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-07 16:02:12.881][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.882][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.889][ef$get] Asked field names are: name.
biodb.TRACE[2026-02-07 16:02:12.890][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-02-07 16:02:12.891][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.893][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.899][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-02-07 16:02:12.901][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-07 16:02:12.902][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:12.903][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:12.927][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-2528-content.xml".
biodb.DEBUG[2026-02-07 16:02:12.975][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-02-07 16:02:12.976][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-02-07 16:02:12.978][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-02-07 16:02:12.980][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-07 16:02:12.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-07 16:02:12.987][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:12.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:12.989][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:12.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-02-07 16:02:12.993][ef$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:12.995][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:13.000][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.001][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:13.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:13.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.031][ef$get] Asked field names are: charge.
biodb.TRACE[2026-02-07 16:02:13.033][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-07 16:02:13.034][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.035][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.037][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-07 16:02:13.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-07 16:02:13.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.042][ef$get] Asked field names are: formula.
biodb.TRACE[2026-02-07 16:02:13.043][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-07 16:02:13.044][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.046][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.048][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-07 16:02:13.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-07 16:02:13.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.053][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-02-07 16:02:13.054][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-07 16:02:13.056][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.057][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.058][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-07 16:02:13.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-07 16:02:13.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.063][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-07 16:02:13.065][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-07 16:02:13.066][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.067][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.069][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-07 16:02:13.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-07 16:02:13.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.074][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:13.075][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:13.077][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.078][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.079][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:13.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:13.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.085][ef$get] Asked field names are: mass.
biodb.TRACE[2026-02-07 16:02:13.086][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:13.087][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.088][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.090][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-02-07 16:02:13.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:13.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.095][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:13.096][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:13.097][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.099][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.100][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:13.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:13.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.105][ef$get] Asked field names are: name.
biodb.TRACE[2026-02-07 16:02:13.107][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-02-07 16:02:13.108][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.109][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.111][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-07 16:02:13.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-07 16:02:13.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.116][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-02-07 16:02:13.118][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-07 16:02:13.119][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.120][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.121][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-02-07 16:02:13.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-07 16:02:13.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.127][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-02-07 16:02:13.128][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-07 16:02:13.129][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.130][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.132][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-07 16:02:13.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-07 16:02:13.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.137][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:13.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:13.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.142][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:13.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:13.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.147][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:13.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:13.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.152][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:13.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:13.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:13.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:13.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:13.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:13.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.167][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:13.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:13.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.173][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:13.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:13.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:13.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:13.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.183][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:13.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:13.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-02-07 16:02:13.193][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 2528.
biodb.TRACE[2026-02-07 16:02:13.221][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-07 16:02:13.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-07 16:02:13.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.227][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-07 16:02:13.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-07 16:02:13.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.232][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-07 16:02:13.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-07 16:02:13.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.237][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-07 16:02:13.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-07 16:02:13.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.242][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:13.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:13.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.247][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:13.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:13.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.252][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-02-07 16:02:13.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-02-07 16:02:13.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.258][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-02-07 16:02:13.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-02-07 16:02:13.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.263][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-02-07 16:02:13.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-02-07 16:02:13.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.268][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-02-07 16:02:13.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-02-07 16:02:13.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.274][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:13.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:13.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.285][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:13.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:13.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:13.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:13.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.301][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:13.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:13.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.307][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:13.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:13.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:13.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:13.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:13.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:13.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.325][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:13.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:13.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.330][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:13.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:13.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.336][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:13.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:13.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.341][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:13.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:13.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:13.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:13.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.374][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:13.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:13.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.379][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:13.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:13.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.390][ef$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:13.391][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:13.393][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.394][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.395][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:13.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:13.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.411][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:13.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:13.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.416][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:13.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:13.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.422][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:13.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:13.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.427][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:13.428][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:13.430][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.431][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.432][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:13.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:13.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.448][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-07 16:02:13.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-07 16:02:13.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.453][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-07 16:02:13.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-07 16:02:13.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.458][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-07 16:02:13.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-07 16:02:13.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.463][ef$get] Asked field names are: name.
biodb.TRACE[2026-02-07 16:02:13.465][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-02-07 16:02:13.466][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.467][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.468][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-07 16:02:13.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-07 16:02:13.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.484][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-07 16:02:13.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-07 16:02:13.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.490][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-07 16:02:13.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-07 16:02:13.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.495][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-07 16:02:13.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-07 16:02:13.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.500][ef$get] Asked field names are: formula.
biodb.TRACE[2026-02-07 16:02:13.501][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-07 16:02:13.502][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.504][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.505][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-07 16:02:13.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-07 16:02:13.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.521][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-02-07 16:02:13.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:13.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:13.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:13.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.532][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:13.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:13.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.537][ef$get] Asked field names are: mass.
biodb.TRACE[2026-02-07 16:02:13.538][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:13.540][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.541][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.542][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-02-07 16:02:13.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:13.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.558][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:13.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:13.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.563][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:13.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:13.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.568][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:13.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:13.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.573][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:13.575][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:13.576][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.577][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.579][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:13.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:13.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.599][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:13.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:13.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.604][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:13.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:13.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.609][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:13.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:13.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.615][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:13.616][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:13.617][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.618][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.620][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:13.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:13.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.636][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-07 16:02:13.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-07 16:02:13.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.641][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-07 16:02:13.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-07 16:02:13.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.646][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-07 16:02:13.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-07 16:02:13.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.651][ef$get] Asked field names are: charge.
biodb.TRACE[2026-02-07 16:02:13.653][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-07 16:02:13.654][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.655][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.656][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-07 16:02:13.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-07 16:02:13.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.672][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-07 16:02:13.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-07 16:02:13.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.678][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-07 16:02:13.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-07 16:02:13.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.683][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-07 16:02:13.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-07 16:02:13.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.689][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-07 16:02:13.691][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-07 16:02:13.692][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.693][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.694][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-07 16:02:13.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-07 16:02:13.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.711][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:13.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:13.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.716][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:13.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:13.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.722][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:13.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:13.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.727][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:13.729][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:13.730][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.731][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.733][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:13.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:13.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.748][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-07 16:02:13.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-07 16:02:13.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.754][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-07 16:02:13.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-07 16:02:13.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.759][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-07 16:02:13.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-07 16:02:13.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.764][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-02-07 16:02:13.766][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-07 16:02:13.767][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.768][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.769][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-07 16:02:13.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-07 16:02:13.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.790][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-07 16:02:13.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-07 16:02:13.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.795][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-07 16:02:13.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-07 16:02:13.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.800][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-07 16:02:13.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-07 16:02:13.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.805][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-07 16:02:13.807][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-07 16:02:13.808][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.809][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.810][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-07 16:02:13.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-07 16:02:13.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.826][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-07 16:02:13.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-07 16:02:13.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.831][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-07 16:02:13.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-07 16:02:13.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.836][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-07 16:02:13.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-07 16:02:13.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.841][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-02-07 16:02:13.843][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-07 16:02:13.844][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.845][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.847][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-07 16:02:13.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-07 16:02:13.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.862][ef$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:13.864][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:13.865][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.866][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.872][ef$get] Asked field names are: charge.
biodb.TRACE[2026-02-07 16:02:13.874][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-07 16:02:13.875][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.876][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.883][ef$get] Asked field names are: formula.
biodb.TRACE[2026-02-07 16:02:13.884][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-07 16:02:13.885][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.887][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.893][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-02-07 16:02:13.895][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-07 16:02:13.896][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.897][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.903][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-07 16:02:13.905][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-07 16:02:13.906][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.907][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.914][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:13.915][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:13.916][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.918][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.924][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:13.926][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:13.927][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.928][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.935][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:13.936][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:13.937][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.939][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.945][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-07 16:02:13.947][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-07 16:02:13.948][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.949][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.956][ef$get] Asked field names are: name.
biodb.TRACE[2026-02-07 16:02:13.957][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-02-07 16:02:13.959][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.960][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.967][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-02-07 16:02:13.968][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-07 16:02:13.969][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:13.970][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:13.977][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-7799-content.xml".
biodb.DEBUG[2026-02-07 16:02:13.979][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-02-07 16:02:13.980][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-02-07 16:02:13.982][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-02-07 16:02:13.984][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-07 16:02:13.985][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-07 16:02:13.996][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:13.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:13.998][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:13.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-02-07 16:02:14.002][ef$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:14.004][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:14.005][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.006][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.008][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:14.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:14.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.013][ef$get] Asked field names are: charge.
biodb.TRACE[2026-02-07 16:02:14.014][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-07 16:02:14.015][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.016][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.018][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-07 16:02:14.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-07 16:02:14.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.023][ef$get] Asked field names are: formula.
biodb.TRACE[2026-02-07 16:02:14.024][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-07 16:02:14.026][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.027][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.028][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-07 16:02:14.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-07 16:02:14.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.034][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-02-07 16:02:14.035][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-07 16:02:14.036][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.038][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.039][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-07 16:02:14.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-07 16:02:14.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.044][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-07 16:02:14.046][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-07 16:02:14.047][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.048][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.050][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-07 16:02:14.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-07 16:02:14.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.055][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:14.056][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:14.057][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.059][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.060][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:14.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:14.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.065][ef$get] Asked field names are: mass.
biodb.TRACE[2026-02-07 16:02:14.067][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:14.068][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.069][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.071][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-02-07 16:02:14.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:14.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.076][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:14.077][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:14.078][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.080][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.081][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:14.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:14.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.086][ef$get] Asked field names are: name.
biodb.TRACE[2026-02-07 16:02:14.088][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-02-07 16:02:14.089][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.091][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.093][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-07 16:02:14.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-07 16:02:14.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.098][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-02-07 16:02:14.100][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-07 16:02:14.102][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.103][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.105][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-02-07 16:02:14.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-07 16:02:14.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.111][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-02-07 16:02:14.112][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-07 16:02:14.113][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.115][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.116][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-07 16:02:14.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-07 16:02:14.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.122][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:14.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:14.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.127][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:14.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:14.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.132][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:14.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:14.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.138][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:14.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:14.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.143][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:14.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:14.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.148][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:14.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:14.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:14.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:14.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:14.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:14.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.164][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:14.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:14.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:14.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:14.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-02-07 16:02:14.174][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 7799.
biodb.TRACE[2026-02-07 16:02:14.177][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-07 16:02:14.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-07 16:02:14.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.182][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-07 16:02:14.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-07 16:02:14.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.187][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-07 16:02:14.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-07 16:02:14.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.197][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-07 16:02:14.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-07 16:02:14.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.202][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:14.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:14.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.207][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:14.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:14.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.212][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-02-07 16:02:14.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-02-07 16:02:14.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.217][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-02-07 16:02:14.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-02-07 16:02:14.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.223][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-02-07 16:02:14.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-02-07 16:02:14.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.228][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-02-07 16:02:14.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-02-07 16:02:14.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.234][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:14.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:14.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.245][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:14.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:14.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:14.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:14.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:14.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:14.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.267][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:14.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:14.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.274][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:14.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:14.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.280][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:14.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:14.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.285][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:14.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:14.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.290][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:14.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:14.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.295][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:14.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:14.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.300][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:14.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:14.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:14.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:14.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:14.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:14.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:14.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:14.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.329][ef$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:14.330][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:14.331][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.333][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.334][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:14.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:14.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.349][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-07 16:02:14.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-07 16:02:14.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.354][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-07 16:02:14.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-07 16:02:14.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.359][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-07 16:02:14.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-07 16:02:14.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.364][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-02-07 16:02:14.366][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-07 16:02:14.367][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.368][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.369][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-07 16:02:14.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-07 16:02:14.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.385][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-07 16:02:14.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-07 16:02:14.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.395][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-07 16:02:14.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-07 16:02:14.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.400][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-07 16:02:14.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-07 16:02:14.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.405][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-02-07 16:02:14.407][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-07 16:02:14.408][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.409][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.411][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-07 16:02:14.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-07 16:02:14.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.427][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-07 16:02:14.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-07 16:02:14.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.432][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-07 16:02:14.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-07 16:02:14.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.437][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-07 16:02:14.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-07 16:02:14.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.442][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-07 16:02:14.444][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-07 16:02:14.445][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.446][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.447][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-07 16:02:14.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-07 16:02:14.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.463][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:14.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:14.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.469][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:14.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:14.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.474][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:14.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:14.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.479][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:14.481][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:14.482][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.483][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.484][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:14.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:14.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.500][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:14.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:14.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.505][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:14.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:14.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.510][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:14.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:14.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.515][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:14.516][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:14.517][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.519][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.520][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:14.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:14.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.536][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:14.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:14.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.541][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:14.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:14.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.546][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:14.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:14.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.552][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:14.553][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:14.554][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.556][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.557][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:14.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:14.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.572][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-07 16:02:14.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-07 16:02:14.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.578][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-07 16:02:14.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-07 16:02:14.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.583][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-07 16:02:14.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-07 16:02:14.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.588][ef$get] Asked field names are: charge.
biodb.TRACE[2026-02-07 16:02:14.594][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-07 16:02:14.595][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.596][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.598][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-07 16:02:14.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-07 16:02:14.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.614][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-07 16:02:14.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-07 16:02:14.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.619][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-07 16:02:14.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-07 16:02:14.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.625][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-07 16:02:14.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-07 16:02:14.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.630][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-07 16:02:14.631][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-07 16:02:14.632][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.634][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.635][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-07 16:02:14.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-07 16:02:14.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.651][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-07 16:02:14.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-07 16:02:14.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.656][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-07 16:02:14.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-07 16:02:14.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.661][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-07 16:02:14.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-07 16:02:14.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.666][ef$get] Asked field names are: name.
biodb.TRACE[2026-02-07 16:02:14.667][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-02-07 16:02:14.668][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.669][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.671][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-07 16:02:14.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-07 16:02:14.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.686][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-07 16:02:14.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-07 16:02:14.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.691][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-07 16:02:14.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-07 16:02:14.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.696][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-07 16:02:14.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-07 16:02:14.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.701][ef$get] Asked field names are: formula.
biodb.TRACE[2026-02-07 16:02:14.703][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-07 16:02:14.704][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.705][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.706][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-07 16:02:14.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-07 16:02:14.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.722][ef$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:14.724][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:14.725][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.726][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.733][ef$get] Asked field names are: charge.
biodb.TRACE[2026-02-07 16:02:14.734][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-07 16:02:14.736][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.737][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.743][ef$get] Asked field names are: formula.
biodb.TRACE[2026-02-07 16:02:14.745][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-07 16:02:14.746][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.747][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.754][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-02-07 16:02:14.755][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-07 16:02:14.756][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.757][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.764][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-07 16:02:14.765][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-07 16:02:14.766][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.768][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.774][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:14.775][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-07 16:02:14.777][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.778][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.784][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:14.786][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-07 16:02:14.787][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.788][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.799][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:14.801][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:14.802][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.803][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.810][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-07 16:02:14.811][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-07 16:02:14.813][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.814][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.821][ef$get] Asked field names are: name.
biodb.TRACE[2026-02-07 16:02:14.822][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-02-07 16:02:14.823][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.824][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:14.831][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-02-07 16:02:14.833][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-07 16:02:14.834][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:14.835][ef$get] fields variable is a list.
biodb.INFO [2026-02-07 16:02:14.846][biodb::testThat]
biodb.INFO [2026-02-07 16:02:14.847][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2026-02-07 16:02:14.849][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-07 16:02:14.850][biodb::testThat]
biodb.DEBUG[2026-02-07 16:02:14.853][private$loadEntries] Creating entries from ids [3]: "15440, 2528, 7799".
biodb.DEBUG[2026-02-07 16:02:14.884][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2026-02-07 16:02:14.888][cch$loadContents] Load 3 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2026-02-07 16:02:14.889][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2026-02-07 16:02:14.891][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2026-02-07 16:02:14.892][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2026-02-07 16:02:14.893][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2026-02-07 16:02:14.900][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-02-07 16:02:14.901][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-07 16:02:14.902][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-07 16:02:14.909][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:14.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:14.911][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:14.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2026-02-07 16:02:14.915][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
fscache.INFO [2026-02-07 16:02:14.943][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
sched.DEBUG[2026-02-07 16:02:14.944][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-07 16:02:14.946][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-07 16:02:14.947][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-02-07 16:02:15.343][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-02-07 16:02:15.344][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-07 16:02:15.345][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-07 16:02:15.347][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-02-07 16:02:15.751][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-02-07 16:02:15.752][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-07 16:02:15.754][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-07 16:02:15.755][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-02-07 16:02:16.141][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-02-07 16:02:16.143][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-07 16:02:16.144][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-07 16:02:16.145][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-02-07 16:02:16.746][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-02-07 16:02:16.748][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-07 16:02:16.749][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-07 16:02:16.751][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-02-07 16:02:17.137][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-02-07 16:02:17.139][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-07 16:02:17.140][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-07 16:02:17.141][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-02-07 16:02:17.540][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-02-07 16:02:17.542][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-07 16:02:17.543][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-07 16:02:17.544][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-02-07 16:02:17.930][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-02-07 16:02:17.932][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-07 16:02:17.933][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-07 16:02:17.934][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-02-07 16:02:18.334][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-02-07 16:02:18.335][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-07 16:02:18.336][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-07 16:02:18.338][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-02-07 16:02:18.724][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-02-07 16:02:18.726][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-07 16:02:18.727][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-07 16:02:18.728][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-02-07 16:02:19.129][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-02-07 16:02:19.130][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-07 16:02:19.132][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-07 16:02:19.134][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-02-07 16:02:19.521][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-02-07 16:02:19.522][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-07 16:02:19.524][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-07 16:02:19.525][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-02-07 16:02:19.924][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-02-07 16:02:19.938][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-07 16:02:19.939][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-07 16:02:19.941][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-02-07 16:02:20.328][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-02-07 16:02:20.330][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-07 16:02:20.331][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-07 16:02:20.333][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-02-07 16:02:20.732][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-02-07 16:02:20.734][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-07 16:02:20.735][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-07 16:02:20.737][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-02-07 16:02:21.124][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-02-07 16:02:21.125][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-07 16:02:21.127][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-07 16:02:21.128][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-02-07 16:02:21.527][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-02-07 16:02:21.528][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-07 16:02:21.529][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-07 16:02:21.531][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-02-07 16:02:21.917][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-02-07 16:02:21.919][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-07 16:02:21.920][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-07 16:02:21.921][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-02-07 16:02:22.320][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-02-07 16:02:22.322][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-07 16:02:22.323][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-07 16:02:22.324][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-02-07 16:02:22.714][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-02-07 16:02:22.715][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-07 16:02:22.716][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-07 16:02:22.717][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-02-07 16:02:23.118][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
biodb.DEBUG[2026-02-07 16:02:23.120][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-02-07 16:02:23.121][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-07 16:02:23.122][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-07 16:02:23.129][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:23.130][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:23.131][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:23.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2026-02-07 16:02:23.156][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
fscache.INFO [2026-02-07 16:02:23.198][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
sched.DEBUG[2026-02-07 16:02:23.220][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-07 16:02:23.222][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-07 16:02:23.224][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-02-07 16:02:23.611][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-02-07 16:02:23.613][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-07 16:02:23.614][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-07 16:02:23.615][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-02-07 16:02:24.014][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-02-07 16:02:24.015][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-07 16:02:24.016][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-07 16:02:24.018][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-02-07 16:02:24.405][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-02-07 16:02:24.406][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-07 16:02:24.412][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-07 16:02:24.421][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-02-07 16:02:24.946][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-02-07 16:02:24.947][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-07 16:02:24.949][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-07 16:02:24.951][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-02-07 16:02:25.339][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-02-07 16:02:25.341][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-07 16:02:25.343][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-07 16:02:25.344][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-02-07 16:02:26.031][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-02-07 16:02:26.033][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-07 16:02:26.034][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-07 16:02:26.036][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-02-07 16:02:26.423][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-02-07 16:02:26.424][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-07 16:02:26.426][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-07 16:02:26.429][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-02-07 16:02:27.008][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-02-07 16:02:27.010][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-07 16:02:27.011][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-07 16:02:27.012][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-02-07 16:02:27.410][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-02-07 16:02:27.412][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-07 16:02:27.414][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-07 16:02:27.416][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-02-07 16:02:28.099][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-02-07 16:02:28.100][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-07 16:02:28.101][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-07 16:02:28.103][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-02-07 16:02:28.490][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-02-07 16:02:28.491][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-07 16:02:28.493][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-07 16:02:28.494][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-02-07 16:02:28.893][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-02-07 16:02:28.894][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-07 16:02:28.896][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-07 16:02:28.897][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-02-07 16:02:29.283][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-02-07 16:02:29.285][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-07 16:02:29.286][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-07 16:02:29.287][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-02-07 16:02:29.687][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-02-07 16:02:29.688][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-07 16:02:29.690][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-07 16:02:29.691][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-02-07 16:02:30.077][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-02-07 16:02:30.078][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-07 16:02:30.080][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-07 16:02:30.081][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-02-07 16:02:30.480][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-02-07 16:02:30.481][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-07 16:02:30.483][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-07 16:02:30.484][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-02-07 16:02:30.872][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-02-07 16:02:30.873][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-07 16:02:30.874][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-07 16:02:30.876][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-02-07 16:02:31.276][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-02-07 16:02:31.277][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-07 16:02:31.278][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-07 16:02:31.280][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-02-07 16:02:31.667][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-02-07 16:02:31.669][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-07 16:02:31.670][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-07 16:02:31.671][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-02-07 16:02:32.071][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
biodb.DEBUG[2026-02-07 16:02:32.073][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-02-07 16:02:32.074][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-07 16:02:32.075][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-07 16:02:32.081][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:32.083][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:32.084][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:32.085][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".
sched.DEBUG[2026-02-07 16:02:32.087][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
fscache.INFO [2026-02-07 16:02:32.089][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
sched.DEBUG[2026-02-07 16:02:32.091][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-07 16:02:32.092][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-07 16:02:32.094][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-02-07 16:02:32.482][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-02-07 16:02:32.484][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-07 16:02:32.485][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-07 16:02:32.486][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-02-07 16:02:32.998][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-02-07 16:02:32.999][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-07 16:02:33.000][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-07 16:02:33.002][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-02-07 16:02:33.390][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-02-07 16:02:33.392][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-07 16:02:33.393][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-07 16:02:33.394][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-02-07 16:02:33.794][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-02-07 16:02:33.796][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-07 16:02:33.797][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-07 16:02:33.799][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-02-07 16:02:34.186][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-02-07 16:02:34.187][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-07 16:02:34.188][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-07 16:02:34.190][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-02-07 16:02:34.589][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-02-07 16:02:34.590][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-07 16:02:34.592][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-07 16:02:34.593][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-02-07 16:02:34.980][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-02-07 16:02:34.981][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-07 16:02:34.982][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-07 16:02:34.984][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-02-07 16:02:35.383][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-02-07 16:02:35.384][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-07 16:02:35.386][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-07 16:02:35.387][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-02-07 16:02:35.776][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-02-07 16:02:35.777][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-07 16:02:35.779][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-07 16:02:35.780][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-02-07 16:02:36.318][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-02-07 16:02:36.319][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-07 16:02:36.320][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-07 16:02:36.322][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-02-07 16:02:36.712][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-02-07 16:02:36.715][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-07 16:02:36.718][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-07 16:02:36.720][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-02-07 16:02:37.124][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-02-07 16:02:37.126][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-07 16:02:37.127][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-07 16:02:37.133][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-02-07 16:02:37.537][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-02-07 16:02:37.538][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-07 16:02:37.539][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-07 16:02:37.541][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-02-07 16:02:38.179][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-02-07 16:02:38.180][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-07 16:02:38.181][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-07 16:02:38.183][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-02-07 16:02:38.570][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-02-07 16:02:38.572][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-07 16:02:38.573][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-07 16:02:38.574][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-02-07 16:02:38.974][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-02-07 16:02:38.975][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-07 16:02:38.976][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-07 16:02:38.978][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-02-07 16:02:39.364][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-02-07 16:02:39.365][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-07 16:02:39.367][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-07 16:02:39.368][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-02-07 16:02:39.768][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-02-07 16:02:39.769][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-07 16:02:39.770][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-07 16:02:39.772][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-02-07 16:02:40.159][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-02-07 16:02:40.160][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-07 16:02:40.161][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-07 16:02:40.163][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-02-07 16:02:40.563][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
fscache.INFO [2026-02-07 16:02:40.567][cch$saveContents] Save 3 contents to /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2026-02-07 16:02:40.569][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2026-02-07 16:02:40.571][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2026-02-07 16:02:40.573][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2026-02-07 16:02:40.575][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-02-07 16:02:40.576][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-07 16:02:40.577][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-07 16:02:40.587][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:40.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:40.591][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:40.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-02-07 16:02:40.595][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:40.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:40.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:40.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:40.603][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:40.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:40.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:40.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:40.611][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:40.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:40.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:40.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-02-07 16:02:40.619][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-02-07 16:02:40.620][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-07 16:02:40.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-07 16:02:40.627][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:40.629][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:40.630][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:40.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-02-07 16:02:40.633][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:40.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:40.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:40.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:40.638][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:40.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:40.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:40.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:40.643][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:40.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:40.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:40.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-02-07 16:02:40.650][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-02-07 16:02:40.651][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-07 16:02:40.652][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-07 16:02:40.659][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:40.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:40.661][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:40.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-02-07 16:02:40.664][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:40.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:40.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:40.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:40.670][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-07 16:02:40.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-07 16:02:40.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:40.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:40.675][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:40.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:40.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:40.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:40.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:40.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:40.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:40.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:40.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:40.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:40.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:40.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:40.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:40.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:40.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:40.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:40.695][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:40.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:40.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:40.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:40.700][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:40.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:40.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:40.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:40.706][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:40.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:40.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:40.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:40.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:40.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:40.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:40.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:40.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:40.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:40.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:40.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:40.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:40.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:40.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:40.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:40.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:40.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:40.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:40.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:40.740][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:40.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:40.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:40.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:40.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:40.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:40.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:40.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:40.750][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:40.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:40.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:40.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:40.755][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:40.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:40.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:40.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:40.760][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-07 16:02:40.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-07 16:02:40.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:40.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-02-07 16:02:40.765][self$createEntryFromContent] Accession numbers: NA, NA, NA.
biodb.DEBUG[2026-02-07 16:02:40.766][self$createEntryFromContent] Found 3 entry/ies without an accession number. Set it/them to NULL.
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-02-07 16:02:40.949][biodb::testThat]
biodb.INFO [2026-02-07 16:02:40.950][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2026-02-07 16:02:40.951][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-07 16:02:40.952][biodb::testThat]
biodb.TRACE[2026-02-07 16:02:40.957][ef$get] Asked field names are: name.
biodb.TRACE[2026-02-07 16:02:40.958][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-02-07 16:02:40.959][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:40.960][ef$get] fields variable is a list.
biodb.DEBUG[2026-02-07 16:02:40.962][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-02-07 16:02:41.306][biodb::testThat]
biodb.INFO [2026-02-07 16:02:41.307][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2026-02-07 16:02:41.308][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-07 16:02:41.310][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-02-07 16:02:41.469][biodb::testThat]
biodb.INFO [2026-02-07 16:02:41.471][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2026-02-07 16:02:41.472][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-07 16:02:41.473][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-02-07 16:02:41.617][biodb::testThat]
biodb.INFO [2026-02-07 16:02:41.619][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2026-02-07 16:02:41.620][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-07 16:02:41.621][biodb::testThat]
biodb.INFO [2026-02-07 16:02:41.633][biodb::testThat]
biodb.INFO [2026-02-07 16:02:41.635][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2026-02-07 16:02:41.636][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-07 16:02:41.637][biodb::testThat]
biodb.INFO [2026-02-07 16:02:41.647][biodb::testThat]
biodb.INFO [2026-02-07 16:02:41.649][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2026-02-07 16:02:41.650][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-07 16:02:41.651][biodb::testThat]
biodb.DEBUG[2026-02-07 16:02:41.656][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2026-02-07 16:02:42.275][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2026-02-07 16:02:42.681][biodb::testThat]
biodb.INFO [2026-02-07 16:02:42.682][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2026-02-07 16:02:42.683][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-07 16:02:42.685][biodb::testThat]
biodb.TRACE[2026-02-07 16:02:42.861][ef$get] Asked field names are: name.
biodb.TRACE[2026-02-07 16:02:42.863][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-02-07 16:02:42.864][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:42.865][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:42.867][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:42.868][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:42.869][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:42.870][ef$get] fields variable is a list.
biodb.INFO [2026-02-07 16:02:42.872][biodb::testThat]
biodb.INFO [2026-02-07 16:02:42.874][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2026-02-07 16:02:42.875][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-07 16:02:42.876][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-02-07 16:02:43.012][biodb::testThat]
biodb.INFO [2026-02-07 16:02:43.013][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2026-02-07 16:02:43.015][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-07 16:02:43.016][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-02-07 16:02:43.088][biodb::testThat]
biodb.INFO [2026-02-07 16:02:43.089][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2026-02-07 16:02:43.091][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-07 16:02:43.092][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-02-07 16:02:43.167][biodb::testThat]
biodb.INFO [2026-02-07 16:02:43.169][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2026-02-07 16:02:43.170][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-07 16:02:43.172][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.TRACE[2026-02-07 16:02:43.246][ef$get] Asked field names are: name.
biodb.TRACE[2026-02-07 16:02:43.248][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-02-07 16:02:43.250][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:43.252][ef$get] fields variable is a list.
biodb.TRACE[2026-02-07 16:02:43.253][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:43.255][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-07 16:02:43.257][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-07 16:02:43.258][ef$get] fields variable is a list.
biodb.INFO [2026-02-07 16:02:43.260][biodb::testThat]
biodb.INFO [2026-02-07 16:02:43.262][biodb::testThat] Running test function  test.annotateMzValues_real_values  (" annotateMzValues() works correctly with real values. ").
biodb.INFO [2026-02-07 16:02:43.263][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-07 16:02:43.265][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-02-07 16:02:43.339][biodb::testThat]
biodb.INFO [2026-02-07 16:02:43.341][biodb::testThat] Running test function  test_annotateMzValues_additional_fields  (" Additional fields are accepted in annotateMzValues() ").
biodb.INFO [2026-02-07 16:02:43.343][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-07 16:02:43.344][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-02-07 16:02:43.414][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2026-02-07 16:02:43.415][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2026-02-07 16:02:43.416][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2026-02-07 16:02:43.418][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-07 16:02:43.419][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-07 16:02:43.420][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-07 16:02:43.421][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-07 16:02:43.422][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2026-02-07 16:02:43.423][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ 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)