Back to Long Tests report for BioC 3.22

This page was generated on 2026-03-28 23:55 -0400 (Sat, 28 Mar 2026).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.2 (2025-10-31) -- "[Not] Part in a Rumble" 4893
merida1macOS 12.7.6 Montereyx86_644.5.2 (2025-10-31) -- "[Not] Part in a Rumble" 4687
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 5/31HostnameOS / ArchCHECK
biodbChebi 1.16.0  (landing page)
Pierrick Roger
Snapshot Date: 2026-03-28 09:55 -0400 (Sat, 28 Mar 2026)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: RELEASE_3_22
git_last_commit: 28c1b2d
git_last_commit_date: 2025-10-29 11:12:25 -0400 (Wed, 29 Oct 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  ERROR  
merida1macOS 12.7.6 Monterey / x86_64  ERROR  

CHECK results for biodbChebi on merida1

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

raw results


Summary

Package: biodbChebi
Version: 1.16.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbChebi_1.16.0.tar.gz
StartedAt: 2026-03-28 16:01:22 -0400 (Sat, 28 Mar 2026)
EndedAt: 2026-03-28 16:02:48 -0400 (Sat, 28 Mar 2026)
EllapsedTime: 86.4 seconds
RetCode: 1
Status:   ERROR  
CheckDir: biodbChebi.Rcheck
Warnings: NA

Tests output

biodbChebi.Rcheck/tests/testthat.Rout.fail


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

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> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2026-03-28 16:02:09.348][biodb::testContext]
biodb.INFO [2026-03-28 16:02:09.352][biodb::testContext] ********************************************************************************
biodb.INFO [2026-03-28 16:02:09.353][biodb::testContext] Test context - Generic long tests
biodb.INFO [2026-03-28 16:02:09.354][biodb::testContext] ********************************************************************************
biodb.INFO [2026-03-28 16:02:09.356][biodb::testContext]
biodb.INFO [2026-03-28 16:02:09.362][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2026-03-28 16:02:09.364][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2026-03-28 16:02:09.372][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-03-28 16:02:09.373][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2026-03-28 16:02:09.374][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2026-03-28 16:02:09.376][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:09.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:09.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:09.379][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2026-03-28 16:02:09.403][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2026-03-28 16:02:09.404][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:09.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:09.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:09.407][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2026-03-28 16:02:09.409][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2026-03-28 16:02:09.410][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:09.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:09.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:09.413][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2026-03-28 16:02:09.414][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2026-03-28 16:02:09.416][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2026-03-28 16:02:09.417][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:09.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:09.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:09.420][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2026-03-28 16:02:09.422][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2026-03-28 16:02:09.423][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2026-03-28 16:02:09.424][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:09.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:09.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:09.427][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2026-03-28 16:02:09.429][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2026-03-28 16:02:09.430][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:09.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:09.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:09.433][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2026-03-28 16:02:09.434][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2026-03-28 16:02:09.436][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2026-03-28 16:02:09.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:09.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:09.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:09.440][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2026-03-28 16:02:09.442][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2026-03-28 16:02:09.443][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:09.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:09.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:09.446][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2026-03-28 16:02:09.448][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2026-03-28 16:02:09.449][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2026-03-28 16:02:09.450][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:09.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:09.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:09.454][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2026-03-28 16:02:09.455][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2026-03-28 16:02:09.456][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2026-03-28 16:02:09.457][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2026-03-28 16:02:09.459][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2026-03-28 16:02:09.460][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2026-03-28 16:02:09.461][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:09.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:09.463][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:09.464][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2026-03-28 16:02:09.466][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2026-03-28 16:02:09.467][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:09.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:09.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:09.470][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2026-03-28 16:02:09.472][self$set] Set key entries.sep to "|".
biodb.DEBUG[2026-03-28 16:02:09.473][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:09.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:09.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:09.476][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2026-03-28 16:02:09.478][self$set] Set key offline to FALSE.
biodb.DEBUG[2026-03-28 16:02:09.479][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:09.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:09.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:09.483][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2026-03-28 16:02:09.490][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2026-03-28 16:02:09.492][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2026-03-28 16:02:09.493][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:09.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:09.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:09.496][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2026-03-28 16:02:09.498][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2026-03-28 16:02:09.508][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2026-03-28 16:02:09.509][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:09.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:09.511][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:09.513][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2026-03-28 16:02:09.514][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2026-03-28 16:02:09.515][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2026-03-28 16:02:09.517][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:09.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:09.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:09.523][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2026-03-28 16:02:09.566][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-03-28 16:02:09.588][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2026-03-28 16:02:09.589][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-03-28 16:02:09.590][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-03-28 16:02:09.592][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-03-28 16:02:09.593][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-03-28 16:02:09.594][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-03-28 16:02:09.596][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-03-28 16:02:09.597][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2026-03-28 16:02:09.598][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-03-28 16:02:09.599][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-03-28 16:02:09.601][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2026-03-28 16:02:09.602][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-03-28 16:02:09.604][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-03-28 16:02:09.605][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-03-28 16:02:09.606][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-03-28 16:02:09.606][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-03-28 16:02:09.606][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-03-28 16:02:09.606][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2026-03-28 16:02:09.606][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2026-03-28 16:02:09.608][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-03-28 16:02:09.609][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-28 16:02:09.610][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-28 16:02:09.611][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-03-28 16:02:09.613][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-28 16:02:09.614][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-28 16:02:09.615][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-03-28 16:02:09.616][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-03-28 16:02:09.617][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-03-28 16:02:09.618][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-03-28 16:02:09.620][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-03-28 16:02:09.621][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-03-28 16:02:09.622][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2026-03-28 16:02:09.625][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-03-28 16:02:09.626][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2026-03-28 16:02:09.627][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-03-28 16:02:09.628][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-03-28 16:02:09.630][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-03-28 16:02:09.631][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-03-28 16:02:09.632][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-03-28 16:02:09.633][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-03-28 16:02:09.635][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2026-03-28 16:02:09.636][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-03-28 16:02:09.637][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-03-28 16:02:09.638][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2026-03-28 16:02:09.640][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-03-28 16:02:09.641][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-03-28 16:02:09.642][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-03-28 16:02:09.643][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-03-28 16:02:09.643][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-03-28 16:02:09.643][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-03-28 16:02:09.643][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2026-03-28 16:02:09.643][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2026-03-28 16:02:09.645][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-03-28 16:02:09.646][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-28 16:02:09.647][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-28 16:02:09.648][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-03-28 16:02:09.650][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-28 16:02:09.651][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-28 16:02:09.652][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-03-28 16:02:09.653][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-03-28 16:02:09.654][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-03-28 16:02:09.656][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-03-28 16:02:09.657][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-03-28 16:02:09.658][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-03-28 16:02:09.660][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2026-03-28 16:02:09.662][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2026-03-28 16:02:09.663][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2026-03-28 16:02:09.664][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-03-28 16:02:09.666][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-03-28 16:02:09.667][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-03-28 16:02:09.668][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-03-28 16:02:09.669][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-03-28 16:02:09.670][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-03-28 16:02:09.672][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2026-03-28 16:02:09.673][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-03-28 16:02:09.674][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2026-03-28 16:02:09.676][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2026-03-28 16:02:09.677][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-03-28 16:02:09.678][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-03-28 16:02:09.679][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-03-28 16:02:09.681][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2026-03-28 16:02:09.682][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-03-28 16:02:09.683][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-28 16:02:09.684][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-28 16:02:09.685][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-03-28 16:02:09.686][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-28 16:02:09.688][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-28 16:02:09.689][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-03-28 16:02:09.690][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-03-28 16:02:09.691][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-03-28 16:02:09.692][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-03-28 16:02:09.694][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-03-28 16:02:09.695][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-03-28 16:02:09.696][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2026-03-28 16:02:09.699][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2026-03-28 16:02:09.700][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2026-03-28 16:02:09.701][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-03-28 16:02:09.702][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-03-28 16:02:09.704][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-03-28 16:02:09.705][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-03-28 16:02:09.706][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-03-28 16:02:09.708][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-03-28 16:02:09.709][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2026-03-28 16:02:09.710][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-03-28 16:02:09.711][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2026-03-28 16:02:09.713][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2026-03-28 16:02:09.714][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-03-28 16:02:09.715][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-03-28 16:02:09.716][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-03-28 16:02:09.718][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2026-03-28 16:02:09.719][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-03-28 16:02:09.720][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-28 16:02:09.721][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-28 16:02:09.723][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-03-28 16:02:09.724][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-28 16:02:09.725][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-28 16:02:09.726][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-03-28 16:02:09.728][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-03-28 16:02:09.729][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-03-28 16:02:09.730][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-03-28 16:02:09.731][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-03-28 16:02:09.733][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-03-28 16:02:09.742][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-03-28 16:02:09.743][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:09.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:09.745][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:09.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:09.748][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:09.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:09.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:09.751][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:09.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:09.754][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:09.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:09.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:09.757][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:09.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:09.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:09.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:09.761][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:09.763][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:09.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:09.765][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:09.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:09.767][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:09.768][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:09.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:09.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:09.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:09.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:09.774][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:09.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:09.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:09.777][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:09.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:09.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:09.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:09.782][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:09.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:09.784][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:09.785][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:09.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:09.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:09.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:09.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:09.790][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:09.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:09.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:09.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:09.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:09.796][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:09.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:09.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:09.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:09.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:09.802][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:09.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:09.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:09.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:09.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:09.808][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:09.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:09.810][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:09.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:09.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:09.813][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:09.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:09.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:09.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:09.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:09.819][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:09.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:09.821][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:09.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:09.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:09.824][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:09.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:09.826][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:09.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:09.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:09.830][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:09.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:09.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:09.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:09.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:09.835][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2026-03-28 16:02:09.840][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2026-03-28 16:02:09.842][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2026-03-28 16:02:09.843][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2026-03-28 16:02:09.845][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2026-03-28 16:02:09.847][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2026-03-28 16:02:09.849][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2026-03-28 16:02:09.850][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2026-03-28 16:02:09.852][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2026-03-28 16:02:09.854][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2026-03-28 16:02:09.856][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2026-03-28 16:02:09.857][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2026-03-28 16:02:09.859][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2026-03-28 16:02:09.861][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2026-03-28 16:02:09.863][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2026-03-28 16:02:09.864][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2026-03-28 16:02:09.866][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2026-03-28 16:02:09.868][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2026-03-28 16:02:09.870][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2026-03-28 16:02:09.871][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2026-03-28 16:02:09.873][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2026-03-28 16:02:09.875][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2026-03-28 16:02:09.876][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2026-03-28 16:02:09.878][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2026-03-28 16:02:09.880][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2026-03-28 16:02:09.881][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2026-03-28 16:02:09.883][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2026-03-28 16:02:09.885][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2026-03-28 16:02:09.887][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2026-03-28 16:02:09.888][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2026-03-28 16:02:09.890][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2026-03-28 16:02:09.892][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2026-03-28 16:02:09.893][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2026-03-28 16:02:09.895][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2026-03-28 16:02:09.897][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2026-03-28 16:02:09.898][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2026-03-28 16:02:09.900][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2026-03-28 16:02:09.902][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2026-03-28 16:02:09.904][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2026-03-28 16:02:09.906][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2026-03-28 16:02:09.907][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2026-03-28 16:02:09.909][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2026-03-28 16:02:09.911][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2026-03-28 16:02:09.913][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2026-03-28 16:02:09.914][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2026-03-28 16:02:09.916][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2026-03-28 16:02:09.918][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2026-03-28 16:02:09.920][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2026-03-28 16:02:09.921][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2026-03-28 16:02:09.923][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2026-03-28 16:02:09.925][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2026-03-28 16:02:09.927][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2026-03-28 16:02:09.929][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2026-03-28 16:02:09.930][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2026-03-28 16:02:09.932][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2026-03-28 16:02:09.934][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2026-03-28 16:02:09.936][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2026-03-28 16:02:09.938][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2026-03-28 16:02:09.940][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2026-03-28 16:02:09.941][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2026-03-28 16:02:09.943][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2026-03-28 16:02:09.945][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2026-03-28 16:02:09.947][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2026-03-28 16:02:09.948][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2026-03-28 16:02:09.950][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2026-03-28 16:02:09.952][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2026-03-28 16:02:09.954][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2026-03-28 16:02:09.956][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2026-03-28 16:02:09.958][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2026-03-28 16:02:09.959][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2026-03-28 16:02:09.961][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2026-03-28 16:02:09.963][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2026-03-28 16:02:09.965][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2026-03-28 16:02:09.966][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2026-03-28 16:02:09.968][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2026-03-28 16:02:09.974][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2026-03-28 16:02:09.976][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2026-03-28 16:02:09.978][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2026-03-28 16:02:09.979][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2026-03-28 16:02:09.981][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2026-03-28 16:02:09.983][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2026-03-28 16:02:09.985][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2026-03-28 16:02:09.986][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2026-03-28 16:02:09.994][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2026-03-28 16:02:09.996][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2026-03-28 16:02:09.999][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-03-28 16:02:10.000][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:10.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:10.003][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:10.004][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[2026-03-28 16:02:10.010][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:10.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-28 16:02:10.012][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-28 16:02:10.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:10.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:10.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:10.017][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[2026-03-28 16:02:10.018][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:10.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-28 16:02:10.020][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-28 16:02:10.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:10.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:10.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:10.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:10.026][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:10.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-28 16:02:10.028][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-28 16:02:10.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:10.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:10.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:10.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:10.034][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:10.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-28 16:02:10.037][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-28 16:02:10.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:10.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:10.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:10.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:10.042][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:10.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-28 16:02:10.044][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-28 16:02:10.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:10.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:10.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:10.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:10.050][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:10.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-28 16:02:10.052][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-28 16:02:10.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:10.055][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:10.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:10.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:10.058][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:10.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-28 16:02:10.060][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-28 16:02:10.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:10.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:10.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:10.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:10.066][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:10.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-28 16:02:10.068][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-28 16:02:10.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:10.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:10.071][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:10.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:10.074][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:10.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-28 16:02:10.076][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-28 16:02:10.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:10.078][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:10.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:10.081][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:10.082][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:10.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-28 16:02:10.084][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-28 16:02:10.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:10.087][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:10.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:10.089][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:10.090][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:10.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-28 16:02:10.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-28 16:02:10.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:10.095][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:10.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:10.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:10.098][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:10.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-28 16:02:10.100][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-28 16:02:10.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:10.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:10.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:10.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:10.106][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:10.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-28 16:02:10.108][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-28 16:02:10.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:10.110][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:10.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:10.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:10.114][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:10.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-28 16:02:10.116][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-28 16:02:10.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:10.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:10.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:10.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:10.121][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:10.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-28 16:02:10.124][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-28 16:02:10.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:10.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:10.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:10.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:10.129][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-28 16:02:10.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-28 16:02:10.132][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-28 16:02:10.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:10.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:10.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:10.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-28 16:02:10.139][biodb$loadDefinitions] Load definitions from file "/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/definitions.yml".
biodb.DEBUG[2026-03-28 16:02:10.151][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2026-03-28 16:02:10.154][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-03-28 16:02:10.155][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2026-03-28 16:02:10.156][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-03-28 16:02:10.158][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-03-28 16:02:10.159][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-03-28 16:02:10.160][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-03-28 16:02:10.161][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2026-03-28 16:02:10.163][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2026-03-28 16:02:10.164][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2026-03-28 16:02:10.165][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-03-28 16:02:10.166][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-03-28 16:02:10.168][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2026-03-28 16:02:10.169][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-03-28 16:02:10.170][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2026-03-28 16:02:10.170][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2026-03-28 16:02:10.170][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2026-03-28 16:02:10.170][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2026-03-28 16:02:10.170][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2026-03-28 16:02:10.170][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2026-03-28 16:02:10.170][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2026-03-28 16:02:10.170][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2026-03-28 16:02:10.170][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2026-03-28 16:02:10.170][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2026-03-28 16:02:10.170][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2026-03-28 16:02:10.172][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2026-03-28 16:02:10.173][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-03-28 16:02:10.173][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-03-28 16:02:10.173][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-03-28 16:02:10.174][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2026-03-28 16:02:10.175][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-28 16:02:10.177][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-28 16:02:10.178][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-03-28 16:02:10.179][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-28 16:02:10.180][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-28 16:02:10.181][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-03-28 16:02:10.182][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2026-03-28 16:02:10.182][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2026-03-28 16:02:10.184][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-03-28 16:02:10.185][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-03-28 16:02:10.186][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2026-03-28 16:02:10.187][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2026-03-28 16:02:10.187][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2026-03-28 16:02:10.195][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2026-03-28 16:02:10.197][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2026-03-28 16:02:10.199][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2026-03-28 16:02:10.205][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2026-03-28 16:02:10.207][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2026-03-28 16:02:10.209][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2026-03-28 16:02:10.232][super$initialize] Initialize connector chebi.
biodb.DEBUG[2026-03-28 16:02:10.250][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2026-03-28 16:02:10.260][biodb::testThat]
biodb.INFO [2026-03-28 16:02:10.262][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2026-03-28 16:02:10.263][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-28 16:02:10.264][biodb::testThat]
biodb.TRACE[2026-03-28 16:02:10.268][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2026-03-28 16:02:10.270][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-03-28 16:02:10.274][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-03-28 16:02:10.282][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-28 16:02:10.284][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-28 16:02:10.285][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-28 16:02:10.302][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:10.303][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:10.305][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:10.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-03-28 16:02:10.316][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:10.317][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:10.318][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.320][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.322][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:10.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:10.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.342][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-28 16:02:10.344][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-28 16:02:10.345][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.346][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.382][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-28 16:02:10.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-28 16:02:10.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.387][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-28 16:02:10.388][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-28 16:02:10.389][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.391][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.392][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-28 16:02:10.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-28 16:02:10.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.397][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-28 16:02:10.399][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-28 16:02:10.400][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.401][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.402][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-28 16:02:10.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-28 16:02:10.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.408][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-28 16:02:10.409][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-28 16:02:10.410][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.411][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.413][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-28 16:02:10.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-28 16:02:10.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.418][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:10.419][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:10.420][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.422][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.423][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:10.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:10.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.428][ef$get] Asked field names are: mass.
biodb.TRACE[2026-03-28 16:02:10.429][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:10.431][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.432][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.433][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-03-28 16:02:10.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:10.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.439][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:10.440][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:10.441][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.442][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.444][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:10.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:10.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.459][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-28 16:02:10.460][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-28 16:02:10.461][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.462][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.464][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-28 16:02:10.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-28 16:02:10.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.469][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-03-28 16:02:10.471][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-28 16:02:10.472][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.473][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.475][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-03-28 16:02:10.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-28 16:02:10.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.480][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-28 16:02:10.481][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-28 16:02:10.482][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.483][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.485][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-28 16:02:10.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-28 16:02:10.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.490][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:10.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:10.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.495][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:10.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:10.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:10.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:10.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.505][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:10.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:10.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:10.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:10.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:10.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:10.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:10.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:10.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:10.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:10.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:10.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:10.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:10.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:10.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-03-28 16:02:10.588][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2026-03-28 16:02:10.591][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-28 16:02:10.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-28 16:02:10.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.597][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-28 16:02:10.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-28 16:02:10.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.669][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-28 16:02:10.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-28 16:02:10.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.675][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-28 16:02:10.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-28 16:02:10.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.680][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:10.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:10.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.685][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:10.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:10.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.690][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-03-28 16:02:10.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-03-28 16:02:10.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.695][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-03-28 16:02:10.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-03-28 16:02:10.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.700][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-03-28 16:02:10.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-03-28 16:02:10.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.705][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-03-28 16:02:10.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-03-28 16:02:10.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.713][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:10.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:10.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:10.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:10.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:10.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:10.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.750][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:10.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:10.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.755][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:10.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:10.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:10.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:10.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.768][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:10.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:10.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.774][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:10.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:10.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:10.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:10.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.784][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:10.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:10.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.790][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:10.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:10.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.804][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:10.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:10.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.809][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:10.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:10.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.815][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:10.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:10.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.820][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:10.821][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:10.823][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.824][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:10.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:10.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.842][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:10.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:10.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.847][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:10.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:10.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.852][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:10.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:10.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.857][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:10.859][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:10.860][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.861][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.862][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:10.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:10.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.883][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-28 16:02:10.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-28 16:02:10.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.889][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-28 16:02:10.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-28 16:02:10.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.894][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-28 16:02:10.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-28 16:02:10.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.899][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-28 16:02:10.900][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-28 16:02:10.902][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.903][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.904][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-28 16:02:10.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-28 16:02:10.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.920][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-28 16:02:10.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-28 16:02:10.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.925][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-28 16:02:10.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-28 16:02:10.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.930][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-28 16:02:10.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-28 16:02:10.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.935][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-28 16:02:10.937][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-28 16:02:10.938][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.939][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.940][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-28 16:02:10.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-28 16:02:10.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.956][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:10.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:10.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.961][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:10.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:10.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.966][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:10.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:10.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.971][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:10.973][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:10.974][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.975][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.976][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:10.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:10.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.993][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:10.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:10.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:10.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:10.998][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:11.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:11.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.004][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:11.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:11.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.009][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:11.010][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:11.012][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.013][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.014][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:11.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:11.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.030][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-28 16:02:11.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-28 16:02:11.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.036][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-28 16:02:11.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-28 16:02:11.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.041][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-28 16:02:11.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-28 16:02:11.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.047][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-28 16:02:11.048][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-28 16:02:11.049][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.050][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.052][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-28 16:02:11.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-28 16:02:11.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.067][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-28 16:02:11.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-28 16:02:11.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.077][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-28 16:02:11.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-28 16:02:11.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.082][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-28 16:02:11.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-28 16:02:11.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.087][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-28 16:02:11.089][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-28 16:02:11.090][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.091][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.092][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-28 16:02:11.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-28 16:02:11.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.108][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:11.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:11.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.113][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:11.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:11.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.118][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:11.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:11.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.123][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:11.124][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:11.126][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.127][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.128][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:11.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:11.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.143][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-28 16:02:11.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-28 16:02:11.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.149][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-28 16:02:11.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-28 16:02:11.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.154][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-28 16:02:11.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-28 16:02:11.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.159][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-28 16:02:11.160][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-28 16:02:11.161][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.163][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.164][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-28 16:02:11.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-28 16:02:11.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.180][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-28 16:02:11.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-28 16:02:11.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.185][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-28 16:02:11.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-28 16:02:11.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.190][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-28 16:02:11.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-28 16:02:11.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.195][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-28 16:02:11.197][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-28 16:02:11.198][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.199][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.200][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-28 16:02:11.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-28 16:02:11.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.216][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-28 16:02:11.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-28 16:02:11.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.222][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-28 16:02:11.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-28 16:02:11.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.227][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-28 16:02:11.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-28 16:02:11.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.233][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-28 16:02:11.234][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-28 16:02:11.235][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.237][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.238][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-28 16:02:11.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-28 16:02:11.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.254][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:11.255][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:11.257][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.258][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.264][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-28 16:02:11.266][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-28 16:02:11.267][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.268][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.279][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-28 16:02:11.280][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-28 16:02:11.282][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.283][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.289][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-28 16:02:11.291][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-28 16:02:11.292][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.293][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.300][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-28 16:02:11.301][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-28 16:02:11.302][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.304][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.310][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:11.312][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:11.313][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.314][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.321][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:11.322][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:11.323][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.325][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.332][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:11.333][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:11.334][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.336][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.342][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-28 16:02:11.344][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-28 16:02:11.345][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.346][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.353][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-28 16:02:11.354][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-28 16:02:11.356][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.357][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.364][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-28 16:02:11.365][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-28 16:02:11.366][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.368][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.391][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-2528-content.xml".
biodb.DEBUG[2026-03-28 16:02:11.440][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-03-28 16:02:11.442][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-03-28 16:02:11.444][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-28 16:02:11.445][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-28 16:02:11.446][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-28 16:02:11.453][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:11.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:11.455][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:11.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-03-28 16:02:11.459][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:11.461][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:11.463][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.464][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:11.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:11.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.499][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-28 16:02:11.501][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-28 16:02:11.502][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.503][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.505][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-28 16:02:11.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-28 16:02:11.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.511][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-28 16:02:11.512][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-28 16:02:11.513][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.515][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.517][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-28 16:02:11.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-28 16:02:11.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.522][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-28 16:02:11.524][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-28 16:02:11.525][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.526][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.528][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-28 16:02:11.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-28 16:02:11.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.533][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-28 16:02:11.535][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-28 16:02:11.536][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.537][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.539][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-28 16:02:11.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-28 16:02:11.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.544][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:11.545][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:11.547][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.548][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.549][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:11.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:11.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.555][ef$get] Asked field names are: mass.
biodb.TRACE[2026-03-28 16:02:11.556][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:11.557][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.559][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.560][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-03-28 16:02:11.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:11.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.565][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:11.567][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:11.568][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.569][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.571][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:11.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:11.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.576][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-28 16:02:11.578][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-28 16:02:11.579][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.580][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.582][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-28 16:02:11.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-28 16:02:11.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.587][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-03-28 16:02:11.589][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-28 16:02:11.590][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.591][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.593][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-03-28 16:02:11.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-28 16:02:11.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.598][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-28 16:02:11.599][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-28 16:02:11.600][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.602][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.603][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-28 16:02:11.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-28 16:02:11.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.608][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:11.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:11.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.613][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:11.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:11.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.618][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:11.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:11.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.623][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:11.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:11.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.628][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:11.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:11.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:11.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:11.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.639][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:11.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:11.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.644][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:11.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:11.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.650][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:11.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:11.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:11.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:11.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-03-28 16:02:11.661][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 2528.
biodb.TRACE[2026-03-28 16:02:11.694][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-28 16:02:11.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-28 16:02:11.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.700][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-28 16:02:11.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-28 16:02:11.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.705][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-28 16:02:11.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-28 16:02:11.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.710][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-28 16:02:11.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-28 16:02:11.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.715][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:11.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:11.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.720][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:11.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:11.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.725][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-03-28 16:02:11.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-03-28 16:02:11.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.730][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-03-28 16:02:11.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-03-28 16:02:11.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.735][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-03-28 16:02:11.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-03-28 16:02:11.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.740][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-03-28 16:02:11.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-03-28 16:02:11.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:11.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:11.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.757][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:11.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:11.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.767][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:11.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:11.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:11.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:11.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.778][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:11.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:11.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.785][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:11.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:11.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.790][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:11.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:11.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:11.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:11.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.800][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:11.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:11.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.805][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:11.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:11.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.811][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:11.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:11.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:11.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:11.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.843][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:11.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:11.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.848][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:11.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:11.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.853][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:11.854][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:11.855][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.860][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.862][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:11.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:11.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:11.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:11.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.882][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:11.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:11.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.887][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:11.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:11.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.892][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:11.894][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:11.895][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.896][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.897][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:11.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:11.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.913][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-28 16:02:11.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-28 16:02:11.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.918][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-28 16:02:11.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-28 16:02:11.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.923][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-28 16:02:11.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-28 16:02:11.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.928][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-28 16:02:11.930][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-28 16:02:11.931][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.932][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.933][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-28 16:02:11.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-28 16:02:11.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.949][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-28 16:02:11.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-28 16:02:11.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.954][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-28 16:02:11.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-28 16:02:11.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.959][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-28 16:02:11.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-28 16:02:11.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.965][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-28 16:02:11.966][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-28 16:02:11.967][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.969][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.970][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-28 16:02:11.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-28 16:02:11.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.985][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-03-28 16:02:11.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:11.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.990][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:11.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:11.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:11.995][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:11.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:11.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:11.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.000][ef$get] Asked field names are: mass.
biodb.TRACE[2026-03-28 16:02:12.002][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:12.003][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.004][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.006][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-03-28 16:02:12.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:12.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.021][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:12.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:12.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:12.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:12.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.031][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:12.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:12.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.036][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:12.038][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:12.039][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.040][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.041][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:12.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:12.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.062][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:12.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:12.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.067][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:12.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:12.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.072][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:12.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:12.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.077][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:12.079][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:12.080][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.081][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.083][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:12.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:12.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.099][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-28 16:02:12.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-28 16:02:12.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.104][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-28 16:02:12.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-28 16:02:12.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.109][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-28 16:02:12.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-28 16:02:12.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.115][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-28 16:02:12.116][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-28 16:02:12.117][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.118][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.120][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-28 16:02:12.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-28 16:02:12.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.135][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-28 16:02:12.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-28 16:02:12.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.140][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-28 16:02:12.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-28 16:02:12.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.145][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-28 16:02:12.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-28 16:02:12.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.150][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-28 16:02:12.152][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-28 16:02:12.153][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.154][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.155][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-28 16:02:12.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-28 16:02:12.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.171][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:12.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:12.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.176][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:12.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:12.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.181][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:12.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:12.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.186][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:12.188][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:12.189][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.190][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.191][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:12.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:12.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.207][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-28 16:02:12.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-28 16:02:12.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.212][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-28 16:02:12.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-28 16:02:12.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.217][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-28 16:02:12.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-28 16:02:12.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.222][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-28 16:02:12.223][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-28 16:02:12.225][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.226][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.227][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-28 16:02:12.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-28 16:02:12.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.243][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-28 16:02:12.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-28 16:02:12.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.248][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-28 16:02:12.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-28 16:02:12.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.258][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-28 16:02:12.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-28 16:02:12.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.263][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-28 16:02:12.264][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-28 16:02:12.265][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.267][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.268][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-28 16:02:12.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-28 16:02:12.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.283][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-28 16:02:12.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-28 16:02:12.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.288][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-28 16:02:12.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-28 16:02:12.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.293][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-28 16:02:12.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-28 16:02:12.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.299][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-28 16:02:12.300][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-28 16:02:12.301][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.302][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.304][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-28 16:02:12.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-28 16:02:12.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.319][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:12.321][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:12.322][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.323][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.330][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-28 16:02:12.331][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-28 16:02:12.333][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.334][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.340][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-28 16:02:12.342][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-28 16:02:12.343][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.344][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.351][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-28 16:02:12.352][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-28 16:02:12.354][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.355][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.361][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-28 16:02:12.363][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-28 16:02:12.364][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.365][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.372][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:12.373][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:12.374][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.376][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.382][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:12.383][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:12.385][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.386][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.392][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:12.394][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:12.395][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.396][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.402][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-28 16:02:12.404][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-28 16:02:12.405][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.406][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.412][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-28 16:02:12.414][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-28 16:02:12.415][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.416][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.423][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-28 16:02:12.424][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-28 16:02:12.425][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.426][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.433][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-7799-content.xml".
biodb.DEBUG[2026-03-28 16:02:12.435][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-03-28 16:02:12.436][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-03-28 16:02:12.438][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-28 16:02:12.439][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-28 16:02:12.440][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-28 16:02:12.447][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:12.448][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:12.449][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:12.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-03-28 16:02:12.453][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:12.455][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:12.456][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.462][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.464][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:12.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:12.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.469][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-28 16:02:12.470][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-28 16:02:12.471][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.472][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.474][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-28 16:02:12.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-28 16:02:12.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.479][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-28 16:02:12.480][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-28 16:02:12.482][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.483][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.484][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-28 16:02:12.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-28 16:02:12.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.490][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-28 16:02:12.491][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-28 16:02:12.492][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.494][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.495][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-28 16:02:12.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-28 16:02:12.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.500][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-28 16:02:12.502][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-28 16:02:12.503][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.504][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.506][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-28 16:02:12.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-28 16:02:12.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.511][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:12.512][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:12.513][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.514][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.516][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:12.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:12.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.521][ef$get] Asked field names are: mass.
biodb.TRACE[2026-03-28 16:02:12.522][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:12.524][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.525][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.526][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-03-28 16:02:12.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:12.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.531][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:12.533][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:12.534][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.535][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.537][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:12.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:12.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.542][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-28 16:02:12.543][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-28 16:02:12.544][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.546][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.547][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-28 16:02:12.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-28 16:02:12.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.552][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-03-28 16:02:12.554][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-28 16:02:12.555][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.556][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.558][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-03-28 16:02:12.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-28 16:02:12.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.563][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-28 16:02:12.564][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-28 16:02:12.565][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.566][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.568][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-28 16:02:12.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-28 16:02:12.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.573][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:12.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:12.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.578][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:12.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:12.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:12.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:12.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.588][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:12.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:12.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.593][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:12.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:12.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.598][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:12.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:12.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:12.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:12.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.608][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:12.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:12.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.613][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:12.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:12.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.618][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:12.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:12.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-03-28 16:02:12.623][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 7799.
biodb.TRACE[2026-03-28 16:02:12.626][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-28 16:02:12.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-28 16:02:12.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.631][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-28 16:02:12.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-28 16:02:12.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.636][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-28 16:02:12.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-28 16:02:12.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.641][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-28 16:02:12.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-28 16:02:12.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.646][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:12.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:12.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.655][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:12.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:12.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.660][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-03-28 16:02:12.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-03-28 16:02:12.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.665][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-03-28 16:02:12.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-03-28 16:02:12.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.670][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-03-28 16:02:12.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-03-28 16:02:12.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.675][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-03-28 16:02:12.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-03-28 16:02:12.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.681][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:12.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:12.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.691][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:12.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:12.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:12.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:12.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.706][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:12.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:12.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:12.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:12.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.718][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:12.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:12.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.723][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:12.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:12.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:12.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:12.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.733][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:12.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:12.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.738][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:12.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:12.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.743][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:12.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:12.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:12.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:12.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:12.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:12.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.766][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:12.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:12.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.772][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:12.773][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:12.774][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.775][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.776][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:12.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:12.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.792][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-28 16:02:12.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-28 16:02:12.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.798][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-28 16:02:12.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-28 16:02:12.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.803][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-28 16:02:12.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-28 16:02:12.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.808][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-28 16:02:12.809][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-28 16:02:12.810][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.812][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.813][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-28 16:02:12.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-28 16:02:12.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.828][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-28 16:02:12.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-28 16:02:12.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.833][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-28 16:02:12.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-28 16:02:12.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.838][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-28 16:02:12.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-28 16:02:12.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.843][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-28 16:02:12.849][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-28 16:02:12.850][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.851][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.852][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-28 16:02:12.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-28 16:02:12.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.868][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-28 16:02:12.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-28 16:02:12.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.873][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-28 16:02:12.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-28 16:02:12.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.878][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-28 16:02:12.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-28 16:02:12.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.883][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-28 16:02:12.884][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-28 16:02:12.885][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.886][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.888][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-28 16:02:12.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-28 16:02:12.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.903][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:12.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:12.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.908][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:12.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:12.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.913][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:12.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:12.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.918][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:12.919][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:12.920][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.922][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.923][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:12.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:12.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.938][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:12.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:12.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.943][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:12.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:12.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.948][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:12.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:12.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.953][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:12.955][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:12.956][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.957][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.958][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:12.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:12.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.976][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:12.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:12.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.982][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:12.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:12.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.987][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:12.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:12.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.992][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:12.993][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:12.995][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:12.996][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:12.997][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:12.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:13.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:13.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:13.012][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-28 16:02:13.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-28 16:02:13.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:13.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:13.018][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-28 16:02:13.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-28 16:02:13.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:13.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:13.023][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-28 16:02:13.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-28 16:02:13.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:13.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:13.028][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-28 16:02:13.029][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-28 16:02:13.030][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:13.032][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:13.033][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-28 16:02:13.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-28 16:02:13.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:13.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:13.053][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-28 16:02:13.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-28 16:02:13.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:13.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:13.058][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-28 16:02:13.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-28 16:02:13.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:13.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:13.063][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-28 16:02:13.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-28 16:02:13.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:13.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:13.068][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-28 16:02:13.069][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-28 16:02:13.070][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:13.072][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:13.073][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-28 16:02:13.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-28 16:02:13.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:13.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:13.089][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-28 16:02:13.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-28 16:02:13.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:13.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:13.094][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-28 16:02:13.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-28 16:02:13.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:13.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:13.099][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-28 16:02:13.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-28 16:02:13.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:13.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:13.104][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-28 16:02:13.105][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-28 16:02:13.106][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:13.107][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:13.109][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-28 16:02:13.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-28 16:02:13.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:13.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:13.124][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-28 16:02:13.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-28 16:02:13.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:13.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:13.129][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-28 16:02:13.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-28 16:02:13.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:13.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:13.134][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-28 16:02:13.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-28 16:02:13.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:13.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:13.139][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-28 16:02:13.140][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-28 16:02:13.141][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:13.142][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:13.144][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-28 16:02:13.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-28 16:02:13.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:13.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:13.159][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:13.160][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:13.161][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:13.162][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:13.169][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-28 16:02:13.171][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-28 16:02:13.172][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:13.174][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:13.180][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-28 16:02:13.181][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-28 16:02:13.182][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:13.184][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:13.190][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-28 16:02:13.192][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-28 16:02:13.193][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:13.194][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:13.200][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-28 16:02:13.202][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-28 16:02:13.203][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:13.204][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:13.211][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:13.212][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-28 16:02:13.213][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:13.215][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:13.221][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:13.222][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-28 16:02:13.224][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:13.225][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:13.231][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:13.233][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:13.234][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:13.235][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:13.246][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-28 16:02:13.248][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-28 16:02:13.249][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:13.250][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:13.257][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-28 16:02:13.259][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-28 16:02:13.260][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:13.261][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:13.268][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-28 16:02:13.269][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-28 16:02:13.271][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:13.272][ef$get] fields variable is a list.
biodb.INFO [2026-03-28 16:02:13.282][biodb::testThat]
biodb.INFO [2026-03-28 16:02:13.284][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2026-03-28 16:02:13.285][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-28 16:02:13.286][biodb::testThat]
biodb.DEBUG[2026-03-28 16:02:13.289][private$loadEntries] Creating entries from ids [3]: "15440, 2528, 7799".
biodb.DEBUG[2026-03-28 16:02:13.425][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2026-03-28 16:02:13.429][cch$loadContents] Load 3 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2026-03-28 16:02:13.430][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2026-03-28 16:02:13.432][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2026-03-28 16:02:13.433][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2026-03-28 16:02:13.434][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2026-03-28 16:02:13.441][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-28 16:02:13.442][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-28 16:02:13.443][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-28 16:02:13.449][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:13.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:13.452][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:13.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2026-03-28 16:02:13.455][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
fscache.INFO [2026-03-28 16:02:13.483][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
sched.DEBUG[2026-03-28 16:02:13.484][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-28 16:02:13.486][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-28 16:02:13.487][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-28 16:02:19.957][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-28 16:02:19.958][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-28 16:02:19.960][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-28 16:02:19.961][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-28 16:02:20.372][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-28 16:02:20.373][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-28 16:02:20.374][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-28 16:02:20.376][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-28 16:02:20.762][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-28 16:02:20.764][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-28 16:02:20.765][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-28 16:02:20.766][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-28 16:02:21.354][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-28 16:02:21.356][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-28 16:02:21.357][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-28 16:02:21.358][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-28 16:02:21.745][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-28 16:02:21.746][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-28 16:02:21.747][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-28 16:02:21.749][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-28 16:02:22.152][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-28 16:02:22.153][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-28 16:02:22.155][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-28 16:02:22.156][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-28 16:02:22.543][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-28 16:02:22.544][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-28 16:02:22.545][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-28 16:02:22.547][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-28 16:02:22.950][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-28 16:02:22.952][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-28 16:02:22.953][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-28 16:02:22.954][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-28 16:02:23.341][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-28 16:02:23.343][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-28 16:02:23.344][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-28 16:02:23.346][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-28 16:02:23.751][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-28 16:02:23.753][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-28 16:02:23.754][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-28 16:02:23.755][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-28 16:02:24.142][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-28 16:02:24.143][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-28 16:02:24.144][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[2026-03-28 16:02:24.145][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 [2026-03-28 16:02:24.550][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-28 16:02:24.551][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-28 16:02:24.552][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-28 16:02:24.554][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-28 16:02:24.942][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-28 16:02:24.943][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-28 16:02:24.945][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-28 16:02:24.946][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-28 16:02:25.557][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-28 16:02:25.559][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-28 16:02:25.565][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-28 16:02:25.576][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-28 16:02:25.968][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-28 16:02:25.970][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-28 16:02:25.972][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-28 16:02:25.974][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-28 16:02:26.615][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-28 16:02:26.618][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-28 16:02:26.622][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-28 16:02:26.696][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-28 16:02:27.089][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-28 16:02:27.090][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-28 16:02:27.091][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-28 16:02:27.092][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-28 16:02:27.497][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-28 16:02:27.498][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-28 16:02:27.500][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-28 16:02:27.501][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-28 16:02:27.887][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-28 16:02:27.888][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-28 16:02:27.890][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-28 16:02:27.891][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-28 16:02:28.295][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
biodb.DEBUG[2026-03-28 16:02:28.297][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-28 16:02:28.298][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-28 16:02:28.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-28 16:02:28.306][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:28.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:28.308][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:28.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2026-03-28 16:02:28.332][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
fscache.INFO [2026-03-28 16:02:28.371][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
sched.DEBUG[2026-03-28 16:02:28.392][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-28 16:02:28.394][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-28 16:02:28.396][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-28 16:02:28.781][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-28 16:02:28.783][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-28 16:02:28.784][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-28 16:02:28.785][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-28 16:02:29.189][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-28 16:02:29.191][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-28 16:02:29.192][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-28 16:02:29.194][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-28 16:02:29.586][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-28 16:02:29.587][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-28 16:02:29.588][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-28 16:02:29.589][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-28 16:02:29.993][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-28 16:02:29.995][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-28 16:02:29.996][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-28 16:02:29.997][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-28 16:02:30.388][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-28 16:02:30.390][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-28 16:02:30.392][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-28 16:02:30.393][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-28 16:02:31.012][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-28 16:02:31.022][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-28 16:02:31.023][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-28 16:02:31.025][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-28 16:02:31.410][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-28 16:02:31.412][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-28 16:02:31.413][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-28 16:02:31.414][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-28 16:02:31.820][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-28 16:02:31.821][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-28 16:02:31.823][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-28 16:02:31.824][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-28 16:02:32.212][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-28 16:02:32.213][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-28 16:02:32.215][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-28 16:02:32.216][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-28 16:02:32.622][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-28 16:02:32.623][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-28 16:02:32.624][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-28 16:02:32.626][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-28 16:02:33.013][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-28 16:02:33.014][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-28 16:02:33.015][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-28 16:02:33.017][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-28 16:02:33.421][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-28 16:02:33.423][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-28 16:02:33.424][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-28 16:02:33.426][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-28 16:02:33.811][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-28 16:02:33.813][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-28 16:02:33.814][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-28 16:02:33.815][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-28 16:02:34.219][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-28 16:02:34.220][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-28 16:02:34.221][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-28 16:02:34.223][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-28 16:02:34.609][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-28 16:02:34.611][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-28 16:02:34.612][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-28 16:02:34.613][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-28 16:02:35.020][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-28 16:02:35.021][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-28 16:02:35.023][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-28 16:02:35.024][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-28 16:02:35.414][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-28 16:02:35.415][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-28 16:02:35.417][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-28 16:02:35.418][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-28 16:02:35.828][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-28 16:02:35.830][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-28 16:02:35.831][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-28 16:02:35.832][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-28 16:02:36.218][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-28 16:02:36.219][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-28 16:02:36.220][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-28 16:02:36.222][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-28 16:02:36.634][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
biodb.DEBUG[2026-03-28 16:02:36.636][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-28 16:02:36.638][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-28 16:02:36.639][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-28 16:02:36.650][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:36.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:36.653][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:36.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2026-03-28 16:02:36.656][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
fscache.INFO [2026-03-28 16:02:36.659][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
sched.DEBUG[2026-03-28 16:02:36.660][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-28 16:02:36.661][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-28 16:02:36.663][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-28 16:02:37.053][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-28 16:02:37.054][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-28 16:02:37.055][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-28 16:02:37.057][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-28 16:02:37.673][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-28 16:02:37.675][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-28 16:02:37.676][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-28 16:02:37.678][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-28 16:02:38.064][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-28 16:02:38.065][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-28 16:02:38.066][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-28 16:02:38.068][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-28 16:02:38.473][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-28 16:02:38.474][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-28 16:02:38.475][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-28 16:02:38.477][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-28 16:02:38.862][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-28 16:02:38.863][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-28 16:02:38.865][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-28 16:02:38.866][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-28 16:02:39.271][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-28 16:02:39.272][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-28 16:02:39.273][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-28 16:02:39.275][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-28 16:02:39.662][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-28 16:02:39.663][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-28 16:02:39.664][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-28 16:02:39.665][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-28 16:02:40.070][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-28 16:02:40.072][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-28 16:02:40.073][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-28 16:02:40.075][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-28 16:02:40.460][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-28 16:02:40.462][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-28 16:02:40.463][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-28 16:02:40.464][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-28 16:02:40.869][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-28 16:02:40.870][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-28 16:02:40.871][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-28 16:02:40.873][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-28 16:02:41.259][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-28 16:02:41.261][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-28 16:02:41.262][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-28 16:02:41.263][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-28 16:02:41.667][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-28 16:02:41.668][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-28 16:02:41.670][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-28 16:02:41.671][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-28 16:02:42.057][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-28 16:02:42.058][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-28 16:02:42.060][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-28 16:02:42.061][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-28 16:02:42.465][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-28 16:02:42.466][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-28 16:02:42.467][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-28 16:02:42.469][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-28 16:02:42.855][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-28 16:02:42.857][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-28 16:02:42.884][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-28 16:02:42.885][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-28 16:02:43.291][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-28 16:02:43.292][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-28 16:02:43.294][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-28 16:02:43.296][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-28 16:02:43.683][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-28 16:02:43.684][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-28 16:02:43.686][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-28 16:02:43.687][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-28 16:02:44.259][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-28 16:02:44.260][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-28 16:02:44.261][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-28 16:02:44.263][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-28 16:02:44.649][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-28 16:02:44.651][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-28 16:02:44.654][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-28 16:02:44.656][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-28 16:02:45.305][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
fscache.INFO [2026-03-28 16:02:45.307][cch$saveContents] Save 3 contents to /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2026-03-28 16:02:45.308][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2026-03-28 16:02:45.310][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2026-03-28 16:02:45.311][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2026-03-28 16:02:45.313][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-28 16:02:45.314][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-28 16:02:45.315][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-28 16:02:45.322][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:45.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:45.325][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:45.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-03-28 16:02:45.328][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:45.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:45.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:45.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:45.334][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:45.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:45.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:45.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:45.339][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:45.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:45.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:45.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-03-28 16:02:45.344][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-28 16:02:45.345][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-28 16:02:45.346][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-28 16:02:45.352][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:45.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:45.355][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:45.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-03-28 16:02:45.358][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:45.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:45.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:45.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:45.365][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:45.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:45.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:45.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:45.370][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:45.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:45.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:45.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-03-28 16:02:45.376][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-28 16:02:45.377][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-28 16:02:45.379][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-28 16:02:45.386][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:45.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:45.388][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:45.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-03-28 16:02:45.392][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:45.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:45.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:45.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:45.397][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-28 16:02:45.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-28 16:02:45.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:45.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:45.402][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:45.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:45.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:45.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:45.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:45.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:45.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:45.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:45.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:45.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:45.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:45.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:45.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:45.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:45.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:45.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:45.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:45.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:45.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:45.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:45.427][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:45.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:45.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:45.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:45.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:45.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:45.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:45.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:45.437][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:45.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:45.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:45.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:45.442][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:45.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:45.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:45.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:45.447][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:45.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:45.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:45.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:45.452][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:45.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:45.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:45.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:45.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:45.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:45.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:45.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:45.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:45.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:45.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:45.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:45.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:45.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:45.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:45.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:45.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:45.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:45.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:45.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:45.484][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-28 16:02:45.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-28 16:02:45.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:45.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-03-28 16:02:45.489][self$createEntryFromContent] Accession numbers: NA, NA, NA.
biodb.DEBUG[2026-03-28 16:02:45.491][self$createEntryFromContent] Found 3 entry/ies without an accession number. Set it/them to NULL.
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-28 16:02:45.672][biodb::testThat]
biodb.INFO [2026-03-28 16:02:45.673][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2026-03-28 16:02:45.675][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-28 16:02:45.676][biodb::testThat]
biodb.TRACE[2026-03-28 16:02:45.680][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-28 16:02:45.681][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-28 16:02:45.683][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:45.684][ef$get] fields variable is a list.
biodb.DEBUG[2026-03-28 16:02:45.685][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-28 16:02:45.987][biodb::testThat]
biodb.INFO [2026-03-28 16:02:45.988][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2026-03-28 16:02:45.989][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-28 16:02:45.990][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-28 16:02:46.150][biodb::testThat]
biodb.INFO [2026-03-28 16:02:46.151][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2026-03-28 16:02:46.152][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-28 16:02:46.154][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-28 16:02:46.299][biodb::testThat]
biodb.INFO [2026-03-28 16:02:46.300][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2026-03-28 16:02:46.302][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-28 16:02:46.303][biodb::testThat]
biodb.INFO [2026-03-28 16:02:46.315][biodb::testThat]
biodb.INFO [2026-03-28 16:02:46.316][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2026-03-28 16:02:46.318][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-28 16:02:46.319][biodb::testThat]
biodb.INFO [2026-03-28 16:02:46.329][biodb::testThat]
biodb.INFO [2026-03-28 16:02:46.331][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2026-03-28 16:02:46.332][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-28 16:02:46.333][biodb::testThat]
biodb.DEBUG[2026-03-28 16:02:46.338][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2026-03-28 16:02:46.916][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2026-03-28 16:02:47.321][biodb::testThat]
biodb.INFO [2026-03-28 16:02:47.322][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2026-03-28 16:02:47.323][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-28 16:02:47.324][biodb::testThat]
biodb.TRACE[2026-03-28 16:02:47.351][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-28 16:02:47.352][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-28 16:02:47.353][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:47.355][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:47.356][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:47.357][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:47.358][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:47.359][ef$get] fields variable is a list.
biodb.INFO [2026-03-28 16:02:47.362][biodb::testThat]
biodb.INFO [2026-03-28 16:02:47.363][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2026-03-28 16:02:47.364][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-28 16:02:47.365][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-28 16:02:47.639][biodb::testThat]
biodb.INFO [2026-03-28 16:02:47.640][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2026-03-28 16:02:47.641][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-28 16:02:47.643][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-28 16:02:47.715][biodb::testThat]
biodb.INFO [2026-03-28 16:02:47.716][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2026-03-28 16:02:47.718][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-28 16:02:47.719][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-28 16:02:47.792][biodb::testThat]
biodb.INFO [2026-03-28 16:02:47.793][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2026-03-28 16:02:47.795][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-28 16:02:47.796][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.TRACE[2026-03-28 16:02:47.869][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-28 16:02:47.870][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-28 16:02:47.872][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:47.873][ef$get] fields variable is a list.
biodb.TRACE[2026-03-28 16:02:47.875][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:47.876][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-28 16:02:47.878][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-28 16:02:47.879][ef$get] fields variable is a list.
biodb.INFO [2026-03-28 16:02:47.882][biodb::testThat]
biodb.INFO [2026-03-28 16:02:47.883][biodb::testThat] Running test function  test.annotateMzValues_real_values  (" annotateMzValues() works correctly with real values. ").
biodb.INFO [2026-03-28 16:02:47.885][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-28 16:02:47.886][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-28 16:02:47.960][biodb::testThat]
biodb.INFO [2026-03-28 16:02:47.962][biodb::testThat] Running test function  test_annotateMzValues_additional_fields  (" Additional fields are accepted in annotateMzValues() ").
biodb.INFO [2026-03-28 16:02:47.963][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-28 16:02:47.965][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-28 16:02:48.034][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2026-03-28 16:02:48.036][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2026-03-28 16:02:48.037][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2026-03-28 16:02:48.038][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-28 16:02:48.039][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-28 16:02:48.040][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-28 16:02:48.042][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-28 16:02:48.043][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2026-03-28 16:02:48.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ 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)