Back to Long Tests report for BioC 3.22

This page was generated on 2026-01-17 23:55 -0500 (Sat, 17 Jan 2026).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.2 (2025-10-31) -- "[Not] Part in a Rumble" 4886
merida1macOS 12.7.6 Montereyx86_644.5.2 (2025-10-31) -- "[Not] Part in a Rumble" 4676
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 5/31HostnameOS / ArchCHECK
biodbChebi 1.16.0  (landing page)
Pierrick Roger
Snapshot Date: 2026-01-17 09:55 -0500 (Sat, 17 Jan 2026)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: RELEASE_3_22
git_last_commit: 28c1b2d
git_last_commit_date: 2025-10-29 11:12:25 -0500 (Wed, 29 Oct 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  ERROR  
merida1macOS 12.7.6 Monterey / x86_64  ERROR  

CHECK results for biodbChebi on nebbiolo2

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: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbChebi_1.16.0.tar.gz
StartedAt: 2026-01-17 16:01:17 -0500 (Sat, 17 Jan 2026)
EndedAt: 2026-01-17 16:02:25 -0500 (Sat, 17 Jan 2026)
EllapsedTime: 68.0 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-pc-linux-gnu

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> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2026-01-17 16:01:54.274][biodb::testContext]
biodb.INFO [2026-01-17 16:01:54.276][biodb::testContext] ********************************************************************************
biodb.INFO [2026-01-17 16:01:54.277][biodb::testContext] Test context - Generic long tests
biodb.INFO [2026-01-17 16:01:54.278][biodb::testContext] ********************************************************************************
biodb.INFO [2026-01-17 16:01:54.278][biodb::testContext]
biodb.INFO [2026-01-17 16:01:54.284][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2026-01-17 16:01:54.286][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2026-01-17 16:01:54.293][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-01-17 16:01:54.294][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2026-01-17 16:01:54.295][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2026-01-17 16:01:54.296][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.298][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2026-01-17 16:01:54.315][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2026-01-17 16:01:54.316][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.318][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2026-01-17 16:01:54.319][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2026-01-17 16:01:54.320][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.322][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2026-01-17 16:01:54.323][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2026-01-17 16:01:54.324][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2026-01-17 16:01:54.325][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.328][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2026-01-17 16:01:54.329][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2026-01-17 16:01:54.330][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2026-01-17 16:01:54.331][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.333][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2026-01-17 16:01:54.334][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2026-01-17 16:01:54.335][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.345][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2026-01-17 16:01:54.346][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2026-01-17 16:01:54.347][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2026-01-17 16:01:54.348][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.350][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2026-01-17 16:01:54.351][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2026-01-17 16:01:54.352][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.355][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2026-01-17 16:01:54.356][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2026-01-17 16:01:54.357][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2026-01-17 16:01:54.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.360][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2026-01-17 16:01:54.361][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2026-01-17 16:01:54.362][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2026-01-17 16:01:54.363][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2026-01-17 16:01:54.364][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2026-01-17 16:01:54.365][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2026-01-17 16:01:54.365][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.368][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2026-01-17 16:01:54.369][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2026-01-17 16:01:54.370][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.372][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2026-01-17 16:01:54.373][self$set] Set key entries.sep to "|".
biodb.DEBUG[2026-01-17 16:01:54.374][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.377][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2026-01-17 16:01:54.377][self$set] Set key offline to FALSE.
biodb.DEBUG[2026-01-17 16:01:54.378][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.381][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2026-01-17 16:01:54.382][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2026-01-17 16:01:54.383][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2026-01-17 16:01:54.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.386][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2026-01-17 16:01:54.387][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2026-01-17 16:01:54.392][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2026-01-17 16:01:54.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.395][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2026-01-17 16:01:54.396][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2026-01-17 16:01:54.397][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2026-01-17 16:01:54.398][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.403][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2026-01-17 16:01:54.433][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-01-17 16:01:54.447][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2026-01-17 16:01:54.448][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-01-17 16:01:54.449][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-01-17 16:01:54.450][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-01-17 16:01:54.451][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-01-17 16:01:54.452][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-01-17 16:01:54.452][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-01-17 16:01:54.453][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2026-01-17 16:01:54.454][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-01-17 16:01:54.455][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-01-17 16:01:54.456][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2026-01-17 16:01:54.457][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-01-17 16:01:54.458][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-01-17 16:01:54.459][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-01-17 16:01:54.460][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-01-17 16:01:54.460][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-01-17 16:01:54.460][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-01-17 16:01:54.460][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2026-01-17 16:01:54.460][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2026-01-17 16:01:54.461][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-01-17 16:01:54.462][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-17 16:01:54.462][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-17 16:01:54.463][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-01-17 16:01:54.464][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-17 16:01:54.465][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-17 16:01:54.466][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-01-17 16:01:54.467][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-01-17 16:01:54.468][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-01-17 16:01:54.469][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-01-17 16:01:54.469][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-01-17 16:01:54.470][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-01-17 16:01:54.471][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2026-01-17 16:01:54.473][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-01-17 16:01:54.474][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2026-01-17 16:01:54.475][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-01-17 16:01:54.476][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-01-17 16:01:54.477][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-01-17 16:01:54.478][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-01-17 16:01:54.478][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-01-17 16:01:54.479][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-01-17 16:01:54.480][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2026-01-17 16:01:54.481][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-01-17 16:01:54.482][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-01-17 16:01:54.483][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2026-01-17 16:01:54.484][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-01-17 16:01:54.485][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-01-17 16:01:54.486][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-01-17 16:01:54.487][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-01-17 16:01:54.487][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-01-17 16:01:54.487][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-01-17 16:01:54.487][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2026-01-17 16:01:54.487][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2026-01-17 16:01:54.488][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-01-17 16:01:54.488][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-17 16:01:54.489][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-17 16:01:54.490][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-01-17 16:01:54.491][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-17 16:01:54.492][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-17 16:01:54.493][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-01-17 16:01:54.494][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-01-17 16:01:54.494][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-01-17 16:01:54.495][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-01-17 16:01:54.496][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-01-17 16:01:54.497][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-01-17 16:01:54.498][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2026-01-17 16:01:54.500][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2026-01-17 16:01:54.501][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2026-01-17 16:01:54.506][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-01-17 16:01:54.507][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-01-17 16:01:54.508][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-01-17 16:01:54.509][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-01-17 16:01:54.509][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-01-17 16:01:54.510][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-01-17 16:01:54.511][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2026-01-17 16:01:54.512][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-01-17 16:01:54.513][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2026-01-17 16:01:54.514][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2026-01-17 16:01:54.515][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-01-17 16:01:54.516][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-01-17 16:01:54.517][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-01-17 16:01:54.518][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2026-01-17 16:01:54.519][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-01-17 16:01:54.520][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-17 16:01:54.520][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-17 16:01:54.521][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-01-17 16:01:54.522][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-17 16:01:54.523][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-17 16:01:54.524][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-01-17 16:01:54.525][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-01-17 16:01:54.526][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-01-17 16:01:54.527][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-01-17 16:01:54.528][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-01-17 16:01:54.529][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-01-17 16:01:54.530][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2026-01-17 16:01:54.531][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2026-01-17 16:01:54.532][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2026-01-17 16:01:54.533][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-01-17 16:01:54.534][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-01-17 16:01:54.535][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-01-17 16:01:54.536][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-01-17 16:01:54.537][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-01-17 16:01:54.538][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-01-17 16:01:54.539][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2026-01-17 16:01:54.540][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-01-17 16:01:54.541][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2026-01-17 16:01:54.542][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2026-01-17 16:01:54.543][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-01-17 16:01:54.544][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-01-17 16:01:54.545][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-01-17 16:01:54.546][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2026-01-17 16:01:54.547][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-01-17 16:01:54.548][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-17 16:01:54.549][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-17 16:01:54.550][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-01-17 16:01:54.551][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-17 16:01:54.551][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-17 16:01:54.552][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-01-17 16:01:54.553][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-01-17 16:01:54.554][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-01-17 16:01:54.555][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-01-17 16:01:54.556][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-01-17 16:01:54.557][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-01-17 16:01:54.560][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-01-17 16:01:54.561][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.562][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.563][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:54.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:54.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.567][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:54.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:54.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.571][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:54.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:54.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.574][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.575][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:54.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:54.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.579][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:54.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:54.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.583][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:54.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:54.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.587][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:54.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:54.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.591][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:54.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:54.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:54.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:54.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.599][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:54.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:54.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:54.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:54.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.608][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:54.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:54.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:54.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:54.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.616][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:54.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:54.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.620][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:54.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:54.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.624][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:54.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:54.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.628][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2026-01-17 16:01:54.632][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2026-01-17 16:01:54.634][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2026-01-17 16:01:54.635][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2026-01-17 16:01:54.636][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2026-01-17 16:01:54.638][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2026-01-17 16:01:54.639][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2026-01-17 16:01:54.640][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2026-01-17 16:01:54.641][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2026-01-17 16:01:54.643][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2026-01-17 16:01:54.644][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2026-01-17 16:01:54.645][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2026-01-17 16:01:54.646][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2026-01-17 16:01:54.648][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2026-01-17 16:01:54.655][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2026-01-17 16:01:54.660][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2026-01-17 16:01:54.661][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2026-01-17 16:01:54.663][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2026-01-17 16:01:54.664][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2026-01-17 16:01:54.666][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2026-01-17 16:01:54.667][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2026-01-17 16:01:54.669][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2026-01-17 16:01:54.670][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2026-01-17 16:01:54.672][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2026-01-17 16:01:54.673][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2026-01-17 16:01:54.675][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2026-01-17 16:01:54.695][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2026-01-17 16:01:54.696][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2026-01-17 16:01:54.698][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2026-01-17 16:01:54.699][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2026-01-17 16:01:54.701][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2026-01-17 16:01:54.702][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2026-01-17 16:01:54.704][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2026-01-17 16:01:54.705][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2026-01-17 16:01:54.707][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2026-01-17 16:01:54.708][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2026-01-17 16:01:54.709][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2026-01-17 16:01:54.711][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2026-01-17 16:01:54.713][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2026-01-17 16:01:54.714][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2026-01-17 16:01:54.715][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2026-01-17 16:01:54.717][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2026-01-17 16:01:54.718][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2026-01-17 16:01:54.720][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2026-01-17 16:01:54.721][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2026-01-17 16:01:54.723][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2026-01-17 16:01:54.724][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2026-01-17 16:01:54.725][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2026-01-17 16:01:54.727][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2026-01-17 16:01:54.728][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2026-01-17 16:01:54.730][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2026-01-17 16:01:54.731][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2026-01-17 16:01:54.732][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2026-01-17 16:01:54.734][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2026-01-17 16:01:54.735][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2026-01-17 16:01:54.737][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2026-01-17 16:01:54.738][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2026-01-17 16:01:54.739][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2026-01-17 16:01:54.741][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2026-01-17 16:01:54.742][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2026-01-17 16:01:54.744][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2026-01-17 16:01:54.745][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2026-01-17 16:01:54.746][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2026-01-17 16:01:54.748][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2026-01-17 16:01:54.749][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2026-01-17 16:01:54.750][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2026-01-17 16:01:54.752][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2026-01-17 16:01:54.753][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2026-01-17 16:01:54.755][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2026-01-17 16:01:54.756][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2026-01-17 16:01:54.757][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2026-01-17 16:01:54.759][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2026-01-17 16:01:54.760][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2026-01-17 16:01:54.762][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2026-01-17 16:01:54.763][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2026-01-17 16:01:54.764][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2026-01-17 16:01:54.766][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2026-01-17 16:01:54.767][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2026-01-17 16:01:54.769][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2026-01-17 16:01:54.770][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2026-01-17 16:01:54.771][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2026-01-17 16:01:54.773][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2026-01-17 16:01:54.774][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2026-01-17 16:01:54.781][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2026-01-17 16:01:54.782][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2026-01-17 16:01:54.786][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-01-17 16:01:54.787][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:54.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:54.788][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.789][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[2026-01-17 16:01:54.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:01:54.796][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:01:54.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:54.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:54.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.801][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:01:54.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:01:54.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:54.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:54.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.806][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[2026-01-17 16:01:54.807][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:01:54.809][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:01:54.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:54.810][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:54.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.812][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[2026-01-17 16:01:54.813][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:01:54.815][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:01:54.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:54.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:54.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.819][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:01:54.821][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:01:54.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:54.823][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:54.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.825][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:01:54.827][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:01:54.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:54.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:54.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.832][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:01:54.833][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:01:54.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:54.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:54.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.838][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:01:54.840][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:01:54.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:54.841][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:54.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.843][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.844][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:01:54.846][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:01:54.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:54.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:54.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:01:54.851][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:01:54.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:54.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:54.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.855][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:01:54.857][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:01:54.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:54.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:54.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.865][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:01:54.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:01:54.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:54.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:54.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.870][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.871][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:01:54.872][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:01:54.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:54.874][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:54.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.877][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:01:54.878][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:01:54.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:54.880][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:54.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.881][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.882][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:01:54.884][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:01:54.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:54.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:54.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.887][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-17 16:01:54.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:01:54.890][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:01:54.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:54.891][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:54.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:54.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-17 16:01:54.895][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/definitions.yml".
biodb.DEBUG[2026-01-17 16:01:54.903][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2026-01-17 16:01:54.905][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-01-17 16:01:54.906][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2026-01-17 16:01:54.907][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-01-17 16:01:54.908][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-01-17 16:01:54.909][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-01-17 16:01:54.910][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-01-17 16:01:54.911][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2026-01-17 16:01:54.912][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2026-01-17 16:01:54.913][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2026-01-17 16:01:54.914][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-01-17 16:01:54.914][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-01-17 16:01:54.915][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2026-01-17 16:01:54.916][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-01-17 16:01:54.917][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2026-01-17 16:01:54.917][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2026-01-17 16:01:54.917][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2026-01-17 16:01:54.917][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2026-01-17 16:01:54.917][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2026-01-17 16:01:54.917][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2026-01-17 16:01:54.917][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2026-01-17 16:01:54.917][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2026-01-17 16:01:54.917][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2026-01-17 16:01:54.917][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2026-01-17 16:01:54.917][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2026-01-17 16:01:54.918][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2026-01-17 16:01:54.919][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-01-17 16:01:54.919][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-01-17 16:01:54.919][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-01-17 16:01:54.920][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2026-01-17 16:01:54.921][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-17 16:01:54.922][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-17 16:01:54.923][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-01-17 16:01:54.924][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-17 16:01:54.924][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-17 16:01:54.925][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-01-17 16:01:54.926][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2026-01-17 16:01:54.926][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2026-01-17 16:01:54.927][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-01-17 16:01:54.928][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-01-17 16:01:54.929][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2026-01-17 16:01:54.930][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2026-01-17 16:01:54.930][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2026-01-17 16:01:54.935][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2026-01-17 16:01:54.937][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2026-01-17 16:01:54.938][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2026-01-17 16:01:54.939][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2026-01-17 16:01:54.941][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2026-01-17 16:01:54.942][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2026-01-17 16:01:54.963][super$initialize] Initialize connector chebi.
biodb.DEBUG[2026-01-17 16:01:54.978][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2026-01-17 16:01:54.986][biodb::testThat]
biodb.INFO [2026-01-17 16:01:54.987][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2026-01-17 16:01:54.987][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-17 16:01:54.988][biodb::testThat]
biodb.TRACE[2026-01-17 16:01:54.991][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2026-01-17 16:01:54.993][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-01-17 16:01:54.996][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-01-17 16:01:55.004][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-17 16:01:55.005][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:01:55.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:01:55.019][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:55.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:55.021][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:55.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-01-17 16:01:55.030][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:55.031][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:55.032][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.033][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:55.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:55.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.058][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:01:55.059][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:01:55.060][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.061][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.085][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:01:55.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:01:55.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.089][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:01:55.090][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:01:55.091][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.092][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.093][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:01:55.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:01:55.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.097][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:01:55.098][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:01:55.099][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.099][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.101][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:01:55.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:01:55.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.104][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:01:55.105][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:01:55.106][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.107][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.108][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:01:55.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:01:55.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.112][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:55.113][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:55.114][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.115][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.116][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:55.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:55.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.120][ef$get] Asked field names are: mass.
biodb.TRACE[2026-01-17 16:01:55.121][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:55.121][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.122][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.123][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-01-17 16:01:55.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:55.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.127][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:55.128][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:55.129][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.130][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.131][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:55.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:55.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.135][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:01:55.136][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:01:55.137][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.138][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.139][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:01:55.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:01:55.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.143][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-01-17 16:01:55.144][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:01:55.145][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.145][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.147][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-01-17 16:01:55.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:01:55.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.150][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:01:55.151][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:01:55.152][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.153][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.154][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:01:55.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:01:55.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.158][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:01:55.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:01:55.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.162][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:01:55.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:01:55.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:55.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:55.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.172][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:01:55.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:01:55.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:55.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:55.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.180][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:55.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:55.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.184][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:55.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:55.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.217][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:55.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:55.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.221][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:55.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:55.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.225][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:55.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:55.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-01-17 16:01:55.228][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2026-01-17 16:01:55.231][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:01:55.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:01:55.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.234][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:01:55.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:01:55.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.259][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:01:55.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:01:55.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.263][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:01:55.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:01:55.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.267][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:55.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:55.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.270][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:55.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:55.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.314][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-01-17 16:01:55.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-01-17 16:01:55.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.317][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-01-17 16:01:55.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-01-17 16:01:55.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.321][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-01-17 16:01:55.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-01-17 16:01:55.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.325][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-01-17 16:01:55.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-01-17 16:01:55.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:55.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:55.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.345][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:01:55.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:01:55.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:55.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:55.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.356][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:55.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:55.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.359][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:55.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:55.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.365][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:55.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:55.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:55.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:55.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:55.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:55.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.376][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:01:55.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:01:55.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:01:55.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:01:55.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.383][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:01:55.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:01:55.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.393][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:55.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:55.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.396][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:55.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:55.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:55.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:55.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.404][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:55.405][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:55.406][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.406][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:55.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:55.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.418][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:01:55.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:01:55.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.422][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:01:55.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:01:55.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.426][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:01:55.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:01:55.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.429][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:01:55.430][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:01:55.431][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.432][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.433][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:01:55.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:01:55.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.447][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:01:55.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:01:55.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.451][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:01:55.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:01:55.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.455][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:01:55.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:01:55.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.458][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:01:55.459][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:01:55.460][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.461][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.462][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:01:55.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:01:55.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.472][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:01:55.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:01:55.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.476][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:01:55.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:01:55.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.480][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:01:55.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:01:55.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.483][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:01:55.484][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:01:55.485][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.486][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.487][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:01:55.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:01:55.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.497][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:55.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:55.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.501][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:55.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:55.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.505][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:55.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:55.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.508][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:55.509][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:55.510][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.511][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.512][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:55.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:55.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.522][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:55.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:55.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.526][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:55.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:55.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.530][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:55.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:55.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.533][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:55.534][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:55.535][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.536][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.537][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:55.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:55.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.547][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:01:55.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:01:55.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.551][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:01:55.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:01:55.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.555][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:01:55.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:01:55.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.558][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:01:55.559][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:01:55.564][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.565][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.566][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:01:55.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:01:55.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.576][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-17 16:01:55.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:01:55.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.580][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-17 16:01:55.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:01:55.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.583][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-17 16:01:55.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:01:55.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.587][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-17 16:01:55.588][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:01:55.589][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.590][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.591][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-17 16:01:55.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:01:55.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.601][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:55.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:55.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.605][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:55.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:55.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.609][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:55.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:55.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.612][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:55.613][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:55.614][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.615][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.616][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:55.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:55.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.626][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:01:55.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:01:55.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.630][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:01:55.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:01:55.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.634][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:01:55.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:01:55.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.637][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:01:55.638][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:01:55.639][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.640][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.641][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:01:55.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:01:55.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.651][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:01:55.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:01:55.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.655][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:01:55.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:01:55.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.659][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:01:55.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:01:55.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.662][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:01:55.663][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:01:55.664][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.665][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.666][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:01:55.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:01:55.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.676][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:01:55.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:01:55.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.680][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:01:55.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:01:55.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.684][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:01:55.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:01:55.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.691][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:01:55.692][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:01:55.693][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.694][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.695][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:01:55.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:01:55.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.705][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:55.706][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:55.707][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.708][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.712][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:01:55.713][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:01:55.714][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.714][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.718][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:01:55.719][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:01:55.720][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.721][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.725][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:01:55.726][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:01:55.727][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.728][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.731][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:01:55.732][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:01:55.733][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.734][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.738][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:55.739][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:55.740][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.741][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.745][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:55.746][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:55.746][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.747][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.751][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:55.752][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:55.753][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.754][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.758][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-17 16:01:55.759][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:01:55.759][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.760][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.764][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:01:55.765][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:01:55.766][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.767][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.771][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:01:55.772][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:01:55.772][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.773][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.789][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-2528-content.xml".
biodb.DEBUG[2026-01-17 16:01:55.825][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-01-17 16:01:55.826][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-01-17 16:01:55.828][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-17 16:01:55.829][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:01:55.829][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:01:55.833][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:55.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:55.835][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:55.836][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-01-17 16:01:55.838][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:55.839][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:55.840][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.841][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:55.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:55.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.861][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:01:55.862][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:01:55.863][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.864][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.865][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:01:55.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:01:55.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.869][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:01:55.870][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:01:55.871][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.871][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.873][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:01:55.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:01:55.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.877][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:01:55.878][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:01:55.879][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.880][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.881][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:01:55.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:01:55.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.884][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:01:55.885][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:01:55.886][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.887][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.888][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:01:55.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:01:55.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.892][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:55.893][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:55.894][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.895][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.896][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:55.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:55.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.900][ef$get] Asked field names are: mass.
biodb.TRACE[2026-01-17 16:01:55.901][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:55.902][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.902][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.904][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-01-17 16:01:55.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:55.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.907][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:55.908][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:55.909][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.910][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.911][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:55.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:55.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.915][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:01:55.916][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:01:55.917][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.918][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.919][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:01:55.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:01:55.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.926][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-01-17 16:01:55.927][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:01:55.928][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.929][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.930][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-01-17 16:01:55.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:01:55.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.934][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:01:55.935][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:01:55.936][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.936][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.937][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:01:55.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:01:55.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:01:55.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:01:55.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.945][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:01:55.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:01:55.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:55.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:55.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.952][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:01:55.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:01:55.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.956][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:55.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:55.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.960][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:55.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:55.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.963][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:55.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:55.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.967][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:55.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:55.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.971][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:55.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:55.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:55.974][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:55.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:55.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:55.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-01-17 16:01:55.978][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 2528.
biodb.TRACE[2026-01-17 16:01:55.997][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:01:55.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:01:55.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.001][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:01:56.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:01:56.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.004][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:01:56.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:01:56.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.008][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:01:56.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:01:56.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.012][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.015][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.019][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-01-17 16:01:56.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-01-17 16:01:56.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.023][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-01-17 16:01:56.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-01-17 16:01:56.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.026][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-01-17 16:01:56.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-01-17 16:01:56.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.030][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-01-17 16:01:56.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-01-17 16:01:56.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:56.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:56.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:01:56.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:01:56.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:56.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:56.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.056][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:56.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:56.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.059][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:56.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:56.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:56.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:56.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.068][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:56.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:56.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:56.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:56.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.076][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:01:56.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:01:56.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.079][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:01:56.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:01:56.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.083][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:01:56.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:01:56.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:56.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:56.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.105][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:56.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:56.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:56.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:56.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.112][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:56.113][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:56.114][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.115][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.116][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:56.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:56.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.126][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:01:56.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:01:56.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.130][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:01:56.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:01:56.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.134][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:01:56.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:01:56.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.137][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:01:56.138][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:01:56.139][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.140][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.141][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:01:56.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:01:56.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.151][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:01:56.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:01:56.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.155][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:01:56.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:01:56.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.159][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:01:56.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:01:56.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.166][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:01:56.167][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:01:56.168][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.169][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.170][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:01:56.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:01:56.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.180][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:01:56.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:01:56.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.184][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:01:56.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:01:56.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.187][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:01:56.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:01:56.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.191][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:01:56.192][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:01:56.193][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.194][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.195][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:01:56.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:01:56.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.205][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-01-17 16:01:56.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.209][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.212][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.216][ef$get] Asked field names are: mass.
biodb.TRACE[2026-01-17 16:01:56.217][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.218][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.219][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.220][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-01-17 16:01:56.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.230][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:56.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:56.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.234][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:56.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:56.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.237][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:56.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:56.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.241][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:56.242][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:56.243][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.244][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.245][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:56.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:56.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.255][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.259][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.263][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.266][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.267][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.268][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.269][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.270][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.280][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:01:56.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:01:56.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.284][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:01:56.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:01:56.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.291][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:01:56.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:01:56.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.295][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:01:56.296][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:01:56.297][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.298][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.299][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:01:56.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:01:56.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.309][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-17 16:01:56.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:01:56.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.313][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-17 16:01:56.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:01:56.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.316][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-17 16:01:56.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:01:56.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.320][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-17 16:01:56.321][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:01:56.322][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.323][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.324][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-17 16:01:56.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:01:56.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.334][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:56.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:56.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.338][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:56.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:56.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.341][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:56.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:56.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.345][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:56.346][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:56.347][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.348][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.349][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:56.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:56.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.359][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:01:56.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:01:56.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.363][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:01:56.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:01:56.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.366][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:01:56.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:01:56.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.370][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:01:56.371][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:01:56.372][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.373][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.374][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:01:56.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:01:56.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.384][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:01:56.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:01:56.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.388][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:01:56.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:01:56.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.391][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:01:56.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:01:56.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.395][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:01:56.396][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:01:56.397][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.398][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.399][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:01:56.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:01:56.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.413][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:01:56.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:01:56.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.416][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:01:56.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:01:56.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.420][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:01:56.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:01:56.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.424][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:01:56.425][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:01:56.426][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.427][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.427][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:01:56.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:01:56.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.438][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:56.439][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:56.440][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.441][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.445][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:01:56.446][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:01:56.447][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.447][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.451][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:01:56.452][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:01:56.453][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.454][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.458][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:01:56.459][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:01:56.460][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.461][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.464][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:01:56.465][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:01:56.466][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.467][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.471][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:56.472][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:56.473][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.474][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.478][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.479][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.479][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.480][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.484][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:56.485][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:56.486][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.487][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.491][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-17 16:01:56.492][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:01:56.493][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.493][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.497][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:01:56.498][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:01:56.499][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.500][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.504][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:01:56.505][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:01:56.506][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.507][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.511][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-7799-content.xml".
biodb.DEBUG[2026-01-17 16:01:56.512][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-01-17 16:01:56.513][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-01-17 16:01:56.514][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-17 16:01:56.515][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:01:56.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:01:56.520][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:56.521][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:56.522][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:56.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-01-17 16:01:56.525][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:56.526][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:56.527][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.527][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:56.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:56.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.536][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:01:56.537][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:01:56.538][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.539][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.540][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:01:56.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:01:56.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.544][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:01:56.545][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:01:56.546][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.546][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.548][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:01:56.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:01:56.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.551][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:01:56.552][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:01:56.553][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.554][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.555][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:01:56.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:01:56.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.559][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:01:56.560][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:01:56.561][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.562][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.563][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:01:56.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:01:56.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.566][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:56.567][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:56.568][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.569][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.570][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:56.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:56.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.574][ef$get] Asked field names are: mass.
biodb.TRACE[2026-01-17 16:01:56.575][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.576][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.577][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.578][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-01-17 16:01:56.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.582][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:56.583][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:56.583][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.584][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.585][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:56.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:56.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.589][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:01:56.590][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:01:56.591][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.592][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.593][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:01:56.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:01:56.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.597][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-01-17 16:01:56.598][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:01:56.599][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.600][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.601][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-01-17 16:01:56.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:01:56.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.604][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:01:56.605][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:01:56.606][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.607][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.608][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:01:56.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:01:56.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.612][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:01:56.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:01:56.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.616][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:01:56.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:01:56.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.619][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:56.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:56.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.623][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:01:56.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:01:56.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:56.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:56.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:56.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:56.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:56.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:56.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:56.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:56.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.642][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:56.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:56.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.645][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:56.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:56.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-01-17 16:01:56.649][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 7799.
biodb.TRACE[2026-01-17 16:01:56.651][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:01:56.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:01:56.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.655][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:01:56.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:01:56.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.662][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:01:56.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:01:56.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.666][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:01:56.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:01:56.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.669][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.673][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.677][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-01-17 16:01:56.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-01-17 16:01:56.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.680][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-01-17 16:01:56.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-01-17 16:01:56.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.684][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-01-17 16:01:56.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-01-17 16:01:56.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.688][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-01-17 16:01:56.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-01-17 16:01:56.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.692][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:56.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:56.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.702][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:01:56.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:01:56.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.713][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:56.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:56.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:56.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:56.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.723][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:56.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:56.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:56.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:56.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:56.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:56.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:56.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:56.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.739][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:01:56.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:01:56.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.743][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:01:56.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:01:56.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.746][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:01:56.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:01:56.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.755][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:56.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:56.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:56.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:56.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.762][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:56.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:56.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.766][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:56.767][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:56.768][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.769][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.770][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:56.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:56.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.780][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:01:56.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:01:56.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.784][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:01:56.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:01:56.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.788][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:01:56.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:01:56.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.792][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:01:56.796][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:01:56.797][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.798][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.799][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:01:56.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:01:56.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.810][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:01:56.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:01:56.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.813][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:01:56.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:01:56.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.817][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:01:56.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:01:56.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.821][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:01:56.822][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:01:56.822][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.823][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.824][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:01:56.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:01:56.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.835][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:01:56.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:01:56.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.838][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:01:56.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:01:56.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.842][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:01:56.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:01:56.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.846][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:01:56.847][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:01:56.848][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.848][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.849][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:01:56.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:01:56.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.860][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:56.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:56.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.863][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:56.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:56.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.867][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:56.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:56.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.871][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:56.872][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:56.873][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.873][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.874][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:56.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:56.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.885][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.888][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.892][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.896][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.897][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.898][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.899][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.900][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:56.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.910][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:56.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:56.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.914][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:56.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:56.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.921][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:56.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:56.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.925][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:56.926][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:56.926][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.927][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.928][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:56.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:56.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.939][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:01:56.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:01:56.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.942][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:01:56.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:01:56.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.946][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:01:56.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:01:56.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.950][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:01:56.951][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:01:56.952][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.952][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.953][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:01:56.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:01:56.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.964][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-17 16:01:56.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:01:56.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.967][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-17 16:01:56.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:01:56.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.971][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-17 16:01:56.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:01:56.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.975][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-17 16:01:56.976][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:01:56.977][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.978][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.979][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-17 16:01:56.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:01:56.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.989][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:01:56.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:01:56.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.993][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:01:56.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:01:56.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:56.996][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:01:56.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:01:56.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:56.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:57.000][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:01:57.001][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:01:57.002][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:57.003][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:57.004][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:01:57.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:01:57.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:57.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:57.014][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:01:57.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:01:57.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:57.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:57.018][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:01:57.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:01:57.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:57.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:57.021][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:01:57.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:01:57.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:57.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:57.025][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:01:57.026][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:01:57.027][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:57.028][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:57.029][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:01:57.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:01:57.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:57.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:57.043][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:01:57.044][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:01:57.045][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:57.046][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:57.049][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-17 16:01:57.050][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-17 16:01:57.051][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:57.052][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:57.056][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-17 16:01:57.057][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-17 16:01:57.058][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:57.059][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:57.063][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-17 16:01:57.064][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-17 16:01:57.064][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:57.065][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:57.069][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-17 16:01:57.070][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-17 16:01:57.071][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:57.072][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:57.076][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:57.077][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-17 16:01:57.078][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:57.078][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:57.082][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:57.083][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-17 16:01:57.084][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:57.085][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:57.089][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:57.090][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:01:57.091][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:57.092][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:57.095][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-17 16:01:57.096][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-17 16:01:57.097][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:57.098][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:57.102][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:01:57.103][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:01:57.104][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:57.105][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:01:57.108][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-17 16:01:57.109][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-17 16:01:57.110][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:01:57.111][ef$get] fields variable is a list.
biodb.INFO [2026-01-17 16:01:57.118][biodb::testThat]
biodb.INFO [2026-01-17 16:01:57.118][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2026-01-17 16:01:57.119][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-17 16:01:57.120][biodb::testThat]
biodb.DEBUG[2026-01-17 16:01:57.122][private$loadEntries] Creating entries from ids [3]: "15440, 2528, 7799".
biodb.DEBUG[2026-01-17 16:01:57.124][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2026-01-17 16:01:57.127][cch$loadContents] Load 3 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2026-01-17 16:01:57.129][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2026-01-17 16:01:57.130][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2026-01-17 16:01:57.131][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2026-01-17 16:01:57.132][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2026-01-17 16:01:57.137][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-17 16:01:57.138][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:01:57.139][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:01:57.143][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:01:57.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:01:57.145][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:01:57.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2026-01-17 16:01:57.147][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
fscache.INFO [2026-01-17 16:01:57.170][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2026-01-17 16:01:57.171][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:01:57.172][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:01:57.173][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-17 16:01:57.882][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-17 16:01:57.883][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:01:57.884][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:01:57.885][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-17 16:01:58.342][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-17 16:01:58.343][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:01:58.344][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:01:58.345][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-17 16:01:58.637][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-17 16:01:58.639][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:01:58.640][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:01:58.642][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-17 16:01:59.330][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-17 16:01:59.333][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:01:59.335][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:01:59.338][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-17 16:01:59.669][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-17 16:01:59.671][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:01:59.673][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:01:59.675][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-17 16:02:00.165][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:00.168][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:00.170][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:00.173][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-17 16:02:00.505][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-17 16:02:00.507][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:00.509][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:00.512][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-17 16:02:01.033][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:01.041][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:01.044][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:01.050][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-17 16:02:01.371][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-17 16:02:01.372][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:01.374][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:01.375][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-17 16:02:01.827][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:01.829][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:01.831][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:01.832][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-17 16:02:02.126][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-17 16:02:02.128][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:02.129][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:02.131][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-17 16:02:02.582][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:02.583][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:02.585][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:02.587][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-17 16:02:02.880][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-17 16:02:02.881][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:02.883][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:02.884][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-17 16:02:03.335][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:03.336][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:03.338][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:03.340][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-17 16:02:03.660][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-17 16:02:03.662][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:03.664][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:03.666][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-17 16:02:04.154][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:04.156][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:04.159][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:04.162][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-17 16:02:04.493][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-17 16:02:04.495][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:04.497][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:04.500][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-17 16:02:04.987][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:04.989][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:04.990][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:04.992][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-17 16:02:05.309][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-17 16:02:05.312][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:05.314][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:05.317][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-17 16:02:05.801][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
biodb.DEBUG[2026-01-17 16:02:05.809][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-17 16:02:05.812][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:02:05.815][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:02:05.839][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:05.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:05.844][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:05.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2026-01-17 16:02:05.924][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
fscache.INFO [2026-01-17 16:02:05.967][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2026-01-17 16:02:05.983][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:05.984][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:05.985][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-17 16:02:06.280][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-17 16:02:06.282][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:06.284][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:06.285][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-17 16:02:06.776][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:06.779][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:06.781][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:06.784][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-17 16:02:07.117][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-17 16:02:07.119][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:07.120][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:07.122][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-17 16:02:07.613][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:07.615][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:07.617][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:07.621][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-17 16:02:07.951][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-17 16:02:07.953][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:07.954][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:07.956][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-17 16:02:08.446][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:08.449][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:08.451][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:08.454][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-17 16:02:08.790][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-17 16:02:08.792][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:08.794][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:08.796][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-17 16:02:09.287][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:09.289][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:09.292][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:09.295][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-17 16:02:09.629][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-17 16:02:09.631][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:09.633][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:09.634][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-17 16:02:10.086][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:10.088][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:10.089][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:10.090][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-17 16:02:10.386][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-17 16:02:10.387][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:10.388][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:10.389][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-17 16:02:10.842][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:10.843][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:10.844][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:10.845][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-17 16:02:11.160][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-17 16:02:11.164][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:11.166][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:11.168][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-17 16:02:11.628][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:11.631][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:11.707][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:11.711][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-17 16:02:12.009][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-17 16:02:12.012][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:12.016][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:12.019][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-17 16:02:12.508][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:12.513][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:12.517][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:12.521][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-17 16:02:12.858][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-17 16:02:12.860][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:12.863][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:12.866][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-17 16:02:13.324][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:13.327][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:13.330][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:13.334][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-17 16:02:13.667][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-17 16:02:13.669][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:13.672][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:13.674][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-17 16:02:14.159][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
biodb.DEBUG[2026-01-17 16:02:14.161][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-17 16:02:14.163][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:02:14.164][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:02:14.173][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:14.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:14.177][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:14.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2026-01-17 16:02:14.182][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
fscache.INFO [2026-01-17 16:02:14.188][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2026-01-17 16:02:14.191][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:14.193][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:14.196][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-17 16:02:14.504][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-17 16:02:14.507][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:14.509][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:14.512][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-17 16:02:15.001][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:15.004][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:15.007][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:15.012][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-17 16:02:15.346][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-17 16:02:15.348][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:15.349][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:15.350][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-17 16:02:15.804][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:15.807][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:15.810][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:15.814][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-17 16:02:16.146][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-17 16:02:16.148][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:16.151][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:16.153][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-17 16:02:16.641][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:16.644][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:16.647][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:16.651][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-17 16:02:16.985][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-17 16:02:16.987][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:16.990][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:16.992][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-17 16:02:17.480][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:17.483][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:17.486][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:17.489][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-17 16:02:17.819][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-17 16:02:17.821][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:17.823][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:17.824][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-17 16:02:18.311][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:18.313][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:18.316][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:18.319][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-17 16:02:18.619][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-17 16:02:18.621][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:18.624][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:18.626][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-17 16:02:19.115][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:19.118][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:19.121][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:19.125][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-17 16:02:19.456][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-17 16:02:19.458][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:19.460][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:19.463][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-17 16:02:19.952][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:19.955][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:19.958][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:19.962][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-17 16:02:20.300][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-17 16:02:20.303][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:20.306][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:20.308][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-17 16:02:20.793][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:20.797][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:20.800][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:20.805][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-17 16:02:21.140][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-17 16:02:21.143][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:21.145][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:21.147][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-17 16:02:21.633][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-17 16:02:21.634][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-17 16:02:21.635][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-17 16:02:21.637][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-17 16:02:21.937][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-17 16:02:21.940][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-17 16:02:21.942][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-17 16:02:21.945][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-17 16:02:22.470][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
fscache.INFO [2026-01-17 16:02:22.476][cch$saveContents] Save 3 contents to /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2026-01-17 16:02:22.478][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2026-01-17 16:02:22.481][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2026-01-17 16:02:22.483][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2026-01-17 16:02:22.486][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-17 16:02:22.488][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:02:22.490][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:02:22.497][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:22.499][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:22.500][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:22.501][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-01-17 16:02:22.503][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:22.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:22.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:22.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:22.508][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:22.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:22.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:22.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:22.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:22.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:22.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:22.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-01-17 16:02:22.517][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-17 16:02:22.518][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:02:22.519][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:02:22.524][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:22.525][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:22.526][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:22.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-01-17 16:02:22.528][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:22.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:22.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:22.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:22.532][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:22.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:22.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:22.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:22.536][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:22.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:22.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:22.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-01-17 16:02:22.541][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-17 16:02:22.542][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:02:22.542][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:02:22.547][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:22.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:22.549][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:22.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-01-17 16:02:22.552][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:22.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:22.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:22.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:22.556][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-17 16:02:22.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-17 16:02:22.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:22.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:22.560][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:22.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:22.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:22.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:22.564][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:22.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:22.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:22.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:22.568][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:22.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:22.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:22.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:22.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:22.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:22.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:22.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:22.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:22.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:22.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:22.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:22.580][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:22.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:22.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:22.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:22.584][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:22.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:22.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:22.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:22.588][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:22.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:22.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:22.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:22.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:22.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:22.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:22.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:22.596][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:22.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:22.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:22.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:22.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:22.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:22.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:22.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:22.604][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:22.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:22.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:22.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:22.608][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:22.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:22.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:22.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:22.612][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:22.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:22.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:22.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:22.619][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:22.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:22.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:22.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:22.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-17 16:02:22.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-17 16:02:22.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:22.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-01-17 16:02:22.627][self$createEntryFromContent] Accession numbers: NA, NA, NA.
biodb.DEBUG[2026-01-17 16:02:22.628][self$createEntryFromContent] Found 3 entry/ies without an accession number. Set it/them to NULL.
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-17 16:02:22.764][biodb::testThat]
biodb.INFO [2026-01-17 16:02:22.765][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2026-01-17 16:02:22.766][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-17 16:02:22.767][biodb::testThat]
biodb.TRACE[2026-01-17 16:02:22.770][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:02:22.771][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:02:22.772][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:22.773][ef$get] fields variable is a list.
biodb.DEBUG[2026-01-17 16:02:22.774][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-17 16:02:23.027][biodb::testThat]
biodb.INFO [2026-01-17 16:02:23.028][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2026-01-17 16:02:23.029][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-17 16:02:23.030][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-17 16:02:23.282][biodb::testThat]
biodb.INFO [2026-01-17 16:02:23.283][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2026-01-17 16:02:23.284][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-17 16:02:23.285][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-17 16:02:23.382][biodb::testThat]
biodb.INFO [2026-01-17 16:02:23.383][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2026-01-17 16:02:23.385][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-17 16:02:23.386][biodb::testThat]
biodb.INFO [2026-01-17 16:02:23.395][biodb::testThat]
biodb.INFO [2026-01-17 16:02:23.396][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2026-01-17 16:02:23.397][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-17 16:02:23.398][biodb::testThat]
biodb.INFO [2026-01-17 16:02:23.406][biodb::testThat]
biodb.INFO [2026-01-17 16:02:23.407][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2026-01-17 16:02:23.408][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-17 16:02:23.409][biodb::testThat]
biodb.DEBUG[2026-01-17 16:02:23.413][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2026-01-17 16:02:23.886][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2026-01-17 16:02:24.192][biodb::testThat]
biodb.INFO [2026-01-17 16:02:24.193][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2026-01-17 16:02:24.194][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-17 16:02:24.195][biodb::testThat]
biodb.TRACE[2026-01-17 16:02:24.219][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:02:24.221][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:02:24.222][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:24.223][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:24.224][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:24.225][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:24.227][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:24.228][ef$get] fields variable is a list.
biodb.INFO [2026-01-17 16:02:24.230][biodb::testThat]
biodb.INFO [2026-01-17 16:02:24.231][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2026-01-17 16:02:24.232][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-17 16:02:24.233][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-17 16:02:24.341][biodb::testThat]
biodb.INFO [2026-01-17 16:02:24.342][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2026-01-17 16:02:24.343][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-17 16:02:24.344][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-17 16:02:24.395][biodb::testThat]
biodb.INFO [2026-01-17 16:02:24.396][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2026-01-17 16:02:24.397][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-17 16:02:24.397][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-17 16:02:24.437][biodb::testThat]
biodb.INFO [2026-01-17 16:02:24.438][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2026-01-17 16:02:24.439][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-17 16:02:24.440][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.TRACE[2026-01-17 16:02:24.479][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-17 16:02:24.480][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-17 16:02:24.481][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:24.482][ef$get] fields variable is a list.
biodb.TRACE[2026-01-17 16:02:24.483][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:24.484][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-17 16:02:24.485][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-17 16:02:24.486][ef$get] fields variable is a list.
biodb.INFO [2026-01-17 16:02:24.487][biodb::testThat]
biodb.INFO [2026-01-17 16:02:24.488][biodb::testThat] Running test function  test.annotateMzValues_real_values  (" annotateMzValues() works correctly with real values. ").
biodb.INFO [2026-01-17 16:02:24.489][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-17 16:02:24.490][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-17 16:02:24.529][biodb::testThat]
biodb.INFO [2026-01-17 16:02:24.530][biodb::testThat] Running test function  test_annotateMzValues_additional_fields  (" Additional fields are accepted in annotateMzValues() ").
biodb.INFO [2026-01-17 16:02:24.531][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-17 16:02:24.532][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-17 16:02:24.571][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2026-01-17 16:02:24.572][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2026-01-17 16:02:24.573][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2026-01-17 16:02:24.574][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-17 16:02:24.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-17 16:02:24.575][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-17 16:02:24.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-17 16:02:24.577][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2026-01-17 16:02:24.578][FUN] Functions in observer 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:
###
###   /home/biocbuild/bbs-3.22-bioc/R/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 ‘/home/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck’
* using R version 4.5.2 (2025-10-31)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
    GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.3 LTS
* 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 loading without being on the library search path ... 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
  ‘/home/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)