Back to Long Tests report for BioC 3.23

This page was generated on 2025-11-08 23:55 -0500 (Sat, 08 Nov 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_64R Under development (unstable) (2025-10-20 r88955) -- "Unsuffered Consequences" 4821
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 5/27HostnameOS / ArchCHECK
biodbChebi 1.17.0  (landing page)
Pierrick Roger
Snapshot Date: 2025-11-08 09:55 -0500 (Sat, 08 Nov 2025)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: devel
git_last_commit: 80ee611
git_last_commit_date: 2025-10-29 11:12:25 -0500 (Wed, 29 Oct 2025)
nebbiolo1Linux (Ubuntu 24.04.3 LTS) / x86_64  ERROR  

CHECK results for biodbChebi on nebbiolo1

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: 1.17.0
Command: /home/biocbuild/bbs-3.23-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_1.17.0.tar.gz
StartedAt: 2025-11-08 16:01:05 -0500 (Sat, 08 Nov 2025)
EndedAt: 2025-11-08 16:02:14 -0500 (Sat, 08 Nov 2025)
EllapsedTime: 69.0 seconds
RetCode: 1
Status:   ERROR  
CheckDir: biodbChebi.Rcheck
Warnings: NA

Tests output

biodbChebi.Rcheck/tests/testthat.Rout.fail


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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 [2025-11-08 16:01:41.564][biodb::testContext]
biodb.INFO [2025-11-08 16:01:41.566][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-08 16:01:41.567][biodb::testContext] Test context - Generic long tests
biodb.INFO [2025-11-08 16:01:41.568][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-08 16:01:41.569][biodb::testContext]
biodb.INFO [2025-11-08 16:01:41.575][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.19.0.
biodb.DEBUG[2025-11-08 16:01:41.577][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.23-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-11-08 16:01:41.583][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-08 16:01:41.584][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-11-08 16:01:41.585][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-11-08 16:01:41.586][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:41.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:41.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:41.589][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-11-08 16:01:41.606][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-11-08 16:01:41.607][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:41.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:41.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:41.618][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-11-08 16:01:41.619][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-11-08 16:01:41.620][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:41.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:41.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:41.623][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-11-08 16:01:41.624][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-11-08 16:01:41.625][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-11-08 16:01:41.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:41.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:41.627][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[2025-11-08 16:01:41.628][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-11-08 16:01:41.629][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-11-08 16:01:41.630][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-11-08 16:01:41.631][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:41.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:41.632][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:41.633][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-11-08 16:01:41.634][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-11-08 16:01:41.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:41.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:41.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:41.638][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-11-08 16:01:41.639][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-11-08 16:01:41.640][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-11-08 16:01:41.640][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:41.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:41.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:41.643][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-11-08 16:01:41.644][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-11-08 16:01:41.645][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:41.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:41.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:41.647][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-11-08 16:01:41.648][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-11-08 16:01:41.649][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-11-08 16:01:41.650][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:41.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:41.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:41.653][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-11-08 16:01:41.654][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-11-08 16:01:41.654][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-11-08 16:01:41.655][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-11-08 16:01:41.656][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-11-08 16:01:41.657][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-11-08 16:01:41.658][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:41.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:41.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:41.661][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-11-08 16:01:41.662][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-11-08 16:01:41.663][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:41.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:41.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:41.665][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-11-08 16:01:41.666][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-11-08 16:01:41.667][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:41.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:41.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:41.670][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-11-08 16:01:41.671][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-11-08 16:01:41.671][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:41.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:41.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:41.674][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-11-08 16:01:41.675][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-11-08 16:01:41.676][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-11-08 16:01:41.677][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:41.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:41.678][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:41.679][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-11-08 16:01:41.680][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-11-08 16:01:41.684][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-11-08 16:01:41.685][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:41.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:41.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:41.687][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-11-08 16:01:41.688][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-11-08 16:01:41.689][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-11-08 16:01:41.690][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:41.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:41.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:41.695][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-11-08 16:01:41.726][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-08 16:01:41.740][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-11-08 16:01:41.741][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-08 16:01:41.742][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-08 16:01:41.743][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-08 16:01:41.744][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-08 16:01:41.745][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-08 16:01:41.746][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-08 16:01:41.747][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-08 16:01:41.748][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-08 16:01:41.749][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-08 16:01:41.750][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-11-08 16:01:41.751][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-08 16:01:41.752][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-08 16:01:41.752][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-08 16:01:41.753][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-08 16:01:41.753][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-08 16:01:41.753][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-08 16:01:41.753][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-08 16:01:41.753][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-08 16:01:41.754][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-08 16:01:41.755][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-08 16:01:41.756][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-08 16:01:41.757][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-08 16:01:41.758][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-08 16:01:41.759][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-08 16:01:41.760][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-08 16:01:41.761][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-08 16:01:41.762][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-08 16:01:41.762][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-08 16:01:41.763][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-08 16:01:41.764][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-08 16:01:41.765][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-11-08 16:01:41.767][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-08 16:01:41.768][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-11-08 16:01:41.769][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-08 16:01:41.770][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-08 16:01:41.771][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-08 16:01:41.772][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-08 16:01:41.773][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-08 16:01:41.773][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-08 16:01:41.774][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-08 16:01:41.775][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-08 16:01:41.776][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-08 16:01:41.777][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-11-08 16:01:41.778][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-08 16:01:41.779][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-08 16:01:41.780][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-08 16:01:41.781][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-08 16:01:41.781][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-08 16:01:41.781][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-08 16:01:41.781][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-08 16:01:41.781][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-08 16:01:41.782][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-08 16:01:41.783][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-08 16:01:41.784][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-08 16:01:41.785][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-08 16:01:41.785][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-08 16:01:41.786][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-08 16:01:41.787][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-08 16:01:41.788][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-08 16:01:41.789][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-08 16:01:41.790][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-08 16:01:41.791][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-08 16:01:41.792][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-08 16:01:41.793][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-11-08 16:01:41.794][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-08 16:01:41.795][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-11-08 16:01:41.796][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-08 16:01:41.797][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-08 16:01:41.798][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-08 16:01:41.799][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-08 16:01:41.800][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-08 16:01:41.801][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-08 16:01:41.802][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-08 16:01:41.803][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-08 16:01:41.804][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-08 16:01:41.805][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-11-08 16:01:41.806][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-08 16:01:41.807][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-08 16:01:41.808][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-08 16:01:41.809][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-08 16:01:41.810][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-08 16:01:41.810][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-08 16:01:41.811][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-08 16:01:41.812][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-08 16:01:41.813][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-08 16:01:41.814][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-08 16:01:41.815][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-08 16:01:41.816][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-08 16:01:41.817][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-08 16:01:41.818][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-08 16:01:41.818][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-08 16:01:41.819][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-08 16:01:41.825][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-11-08 16:01:41.826][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-08 16:01:41.827][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-11-08 16:01:41.828][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-08 16:01:41.829][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-08 16:01:41.830][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-08 16:01:41.831][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-08 16:01:41.832][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-08 16:01:41.833][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-08 16:01:41.834][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-08 16:01:41.835][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-08 16:01:41.836][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-08 16:01:41.837][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-11-08 16:01:41.838][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-08 16:01:41.838][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-08 16:01:41.839][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-08 16:01:41.840][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-08 16:01:41.841][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-08 16:01:41.842][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-08 16:01:41.843][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-08 16:01:41.844][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-08 16:01:41.845][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-08 16:01:41.846][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-08 16:01:41.847][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-08 16:01:41.847][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-08 16:01:41.848][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-08 16:01:41.849][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-08 16:01:41.850][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-08 16:01:41.851][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-08 16:01:41.855][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-08 16:01:41.855][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:41.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:41.857][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:41.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:41.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:41.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:41.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:41.861][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:41.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:41.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:41.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:41.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:41.865][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:41.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:41.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:41.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:41.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:41.870][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:41.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:41.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:41.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:41.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:41.874][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:41.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:41.876][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:41.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:41.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:41.878][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:41.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:41.880][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:41.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:41.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:41.882][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:41.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:41.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:41.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:41.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:41.887][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:41.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:41.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:41.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:41.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:41.891][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:41.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:41.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:41.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:41.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:41.895][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:41.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:41.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:41.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:41.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:41.899][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:41.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:41.901][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:41.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:41.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:41.904][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:41.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:41.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:41.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:41.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:41.908][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:41.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:41.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:41.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:41.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:41.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:41.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:41.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:41.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:41.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:41.916][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:41.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:41.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:41.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:41.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:41.921][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:41.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:41.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:41.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:41.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:41.925][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-11-08 16:01:41.929][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-11-08 16:01:41.931][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-11-08 16:01:41.932][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-11-08 16:01:41.933][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-08 16:01:41.934][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-11-08 16:01:41.936][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-11-08 16:01:41.937][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-11-08 16:01:41.938][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-11-08 16:01:41.945][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-11-08 16:01:41.947][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-08 16:01:41.949][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-11-08 16:01:41.950][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-11-08 16:01:41.952][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-11-08 16:01:41.954][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-11-08 16:01:41.955][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-11-08 16:01:41.956][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-11-08 16:01:41.958][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-11-08 16:01:41.959][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-08 16:01:41.961][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-11-08 16:01:41.962][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-11-08 16:01:41.964][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-11-08 16:01:41.965][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-11-08 16:01:41.967][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-11-08 16:01:41.968][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-11-08 16:01:41.970][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-11-08 16:01:41.971][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-11-08 16:01:41.973][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-11-08 16:01:41.974][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-11-08 16:01:41.976][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-11-08 16:01:41.977][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-11-08 16:01:41.978][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-11-08 16:01:41.980][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-11-08 16:01:41.981][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-11-08 16:01:41.983][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-11-08 16:01:41.984][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-11-08 16:01:41.986][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-11-08 16:01:41.987][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-11-08 16:01:41.989][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-11-08 16:01:41.990][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-11-08 16:01:41.991][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-11-08 16:01:41.993][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-11-08 16:01:41.994][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-11-08 16:01:41.996][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-11-08 16:01:41.997][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-11-08 16:01:41.999][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-11-08 16:01:42.000][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-11-08 16:01:42.002][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-11-08 16:01:42.003][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-11-08 16:01:42.005][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-11-08 16:01:42.006][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-11-08 16:01:42.008][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-11-08 16:01:42.009][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-11-08 16:01:42.010][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-11-08 16:01:42.012][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-11-08 16:01:42.013][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-11-08 16:01:42.015][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-11-08 16:01:42.016][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-11-08 16:01:42.018][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-11-08 16:01:42.019][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-11-08 16:01:42.021][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-11-08 16:01:42.022][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-11-08 16:01:42.023][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-11-08 16:01:42.025][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-11-08 16:01:42.026][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-11-08 16:01:42.028][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-11-08 16:01:42.029][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-08 16:01:42.031][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-08 16:01:42.032][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-11-08 16:01:42.034][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-11-08 16:01:42.035][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-11-08 16:01:42.036][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-11-08 16:01:42.038][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-11-08 16:01:42.039][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-11-08 16:01:42.041][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-11-08 16:01:42.042][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-11-08 16:01:42.058][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-11-08 16:01:42.060][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-11-08 16:01:42.061][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-11-08 16:01:42.063][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-11-08 16:01:42.064][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-11-08 16:01:42.066][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-11-08 16:01:42.067][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-11-08 16:01:42.074][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-11-08 16:01:42.075][initialize] This is biodb version 1.19.0.
biodb.DEBUG[2025-11-08 16:01:42.079][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-08 16:01:42.080][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:42.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:42.082][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:42.083][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:42.088][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:42.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-08 16:01:42.089][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-08 16:01:42.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:42.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:42.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:42.093][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:42.094][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:42.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-08 16:01:42.096][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-08 16:01:42.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:42.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:42.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:42.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:42.101][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:42.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-08 16:01:42.103][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-08 16:01:42.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:42.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:42.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:42.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:42.108][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:42.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-08 16:01:42.109][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-08 16:01:42.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:42.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:42.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:42.113][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:42.114][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:42.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-08 16:01:42.116][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-08 16:01:42.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:42.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:42.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:42.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:42.121][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:42.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-08 16:01:42.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-08 16:01:42.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:42.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:42.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:42.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:42.127][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:42.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-08 16:01:42.129][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-08 16:01:42.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:42.131][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:42.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:42.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:42.134][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:42.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-08 16:01:42.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-08 16:01:42.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:42.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:42.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:42.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:42.140][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:42.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-08 16:01:42.142][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-08 16:01:42.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:42.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:42.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:42.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:42.147][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:42.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-08 16:01:42.149][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-08 16:01:42.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:42.151][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:42.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:42.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:42.153][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:42.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-08 16:01:42.155][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-08 16:01:42.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:42.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:42.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:42.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:42.160][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:42.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-08 16:01:42.162][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-08 16:01:42.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:42.164][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:42.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:42.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:42.166][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:42.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-08 16:01:42.168][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-08 16:01:42.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:42.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:42.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:42.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:42.173][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:42.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-08 16:01:42.175][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-08 16:01:42.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:42.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:42.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:42.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:42.180][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:42.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-08 16:01:42.182][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-08 16:01:42.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:42.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:42.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:42.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:42.186][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-08 16:01:42.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-08 16:01:42.188][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-08 16:01:42.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:42.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:42.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:42.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-08 16:01:42.193][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/definitions.yml".
biodb.DEBUG[2025-11-08 16:01:42.202][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-11-08 16:01:42.204][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-08 16:01:42.205][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-11-08 16:01:42.206][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-08 16:01:42.207][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-08 16:01:42.208][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-08 16:01:42.209][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-08 16:01:42.210][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-11-08 16:01:42.211][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-11-08 16:01:42.212][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-11-08 16:01:42.212][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-08 16:01:42.213][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-08 16:01:42.214][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-11-08 16:01:42.215][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-08 16:01:42.216][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-11-08 16:01:42.216][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-11-08 16:01:42.216][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-11-08 16:01:42.216][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-11-08 16:01:42.216][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-11-08 16:01:42.216][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-11-08 16:01:42.216][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-11-08 16:01:42.216][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-11-08 16:01:42.216][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-11-08 16:01:42.216][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-11-08 16:01:42.216][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-11-08 16:01:42.218][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-11-08 16:01:42.218][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-08 16:01:42.218][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-08 16:01:42.218][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-08 16:01:42.220][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-11-08 16:01:42.220][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-08 16:01:42.221][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-08 16:01:42.222][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-08 16:01:42.223][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-08 16:01:42.224][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-08 16:01:42.225][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-08 16:01:42.226][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-11-08 16:01:42.226][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-11-08 16:01:42.227][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-08 16:01:42.228][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-08 16:01:42.229][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-11-08 16:01:42.230][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-11-08 16:01:42.230][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-11-08 16:01:42.235][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-08 16:01:42.237][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-08 16:01:42.238][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-11-08 16:01:42.240][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-08 16:01:42.241][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-08 16:01:42.243][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-08 16:01:42.265][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-11-08 16:01:42.280][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-11-08 16:01:42.295][biodb::testThat]
biodb.INFO [2025-11-08 16:01:42.296][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-11-08 16:01:42.297][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-08 16:01:42.297][biodb::testThat]
biodb.TRACE[2025-11-08 16:01:42.301][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-11-08 16:01:42.302][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-08 16:01:42.305][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-08 16:01:42.312][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-08 16:01:42.313][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-08 16:01:42.314][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-08 16:01:42.326][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:42.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:42.327][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:42.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-08 16:01:42.337][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:42.338][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:42.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.339][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:42.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:42.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.356][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-08 16:01:42.357][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-08 16:01:42.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.359][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.384][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-08 16:01:42.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-08 16:01:42.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.388][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-08 16:01:42.389][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-08 16:01:42.390][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.390][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.392][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-08 16:01:42.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-08 16:01:42.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.396][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-08 16:01:42.397][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-08 16:01:42.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.398][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.400][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-08 16:01:42.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-08 16:01:42.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.403][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-08 16:01:42.404][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-08 16:01:42.405][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.406][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.407][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-08 16:01:42.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-08 16:01:42.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.411][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:42.412][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:42.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.414][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.415][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:42.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:42.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.419][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-08 16:01:42.420][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:42.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.422][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.423][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-08 16:01:42.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:42.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.427][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:42.428][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:42.429][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.430][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.431][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:42.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:42.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.435][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-08 16:01:42.436][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-08 16:01:42.437][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.438][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.439][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-08 16:01:42.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-08 16:01:42.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.443][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-08 16:01:42.444][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-08 16:01:42.445][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.446][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.447][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-08 16:01:42.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-08 16:01:42.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.451][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-08 16:01:42.452][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-08 16:01:42.453][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.454][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.455][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-08 16:01:42.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-08 16:01:42.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.459][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:01:42.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:01:42.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.463][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:01:42.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:01:42.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.467][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:42.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:42.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.470][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:01:42.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:01:42.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:42.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:42.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.484][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:42.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:42.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.488][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:42.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:42.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:42.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:42.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:42.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:42.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:42.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:42.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-08 16:01:42.533][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-11-08 16:01:42.535][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-08 16:01:42.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-08 16:01:42.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.539][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-08 16:01:42.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-08 16:01:42.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.564][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-08 16:01:42.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-08 16:01:42.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.567][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-08 16:01:42.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-08 16:01:42.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.571][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:42.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:42.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.575][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:42.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:42.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.579][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-08 16:01:42.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-08 16:01:42.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.582][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-08 16:01:42.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-08 16:01:42.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.586][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-11-08 16:01:42.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-11-08 16:01:42.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.590][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-11-08 16:01:42.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-11-08 16:01:42.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.595][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:42.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:42.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.610][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:01:42.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:01:42.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.617][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:42.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:42.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:42.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:42.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.625][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:42.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:42.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:42.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:42.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:42.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:42.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.641][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:42.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:42.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.645][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:01:42.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:01:42.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.649][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:01:42.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:01:42.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.653][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:01:42.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:01:42.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.662][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:42.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:42.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.666][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:42.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:42.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.670][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:42.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:42.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.673][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:42.674][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:42.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.676][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:42.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:42.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.688][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:01:42.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:01:42.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.691][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:01:42.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:01:42.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.695][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:01:42.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:01:42.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.699][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:01:42.700][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:01:42.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.702][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.703][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:01:42.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:01:42.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.713][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-08 16:01:42.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-08 16:01:42.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.716][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-08 16:01:42.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-08 16:01:42.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.720][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-08 16:01:42.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-08 16:01:42.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.724][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-08 16:01:42.725][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-08 16:01:42.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.727][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.728][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-08 16:01:42.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-08 16:01:42.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.738][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-08 16:01:42.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-08 16:01:42.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.741][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-08 16:01:42.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-08 16:01:42.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.745][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-08 16:01:42.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-08 16:01:42.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.749][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-08 16:01:42.750][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-08 16:01:42.751][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.752][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.753][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-08 16:01:42.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-08 16:01:42.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.763][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:42.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:42.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.766][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:42.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:42.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.770][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:42.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:42.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.774][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:42.775][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:42.776][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.777][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.778][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:42.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:42.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.788][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:42.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:42.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.792][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:42.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:42.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.795][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:42.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:42.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.799][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:42.800][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:42.801][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.802][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.803][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:42.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:42.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.845][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-08 16:01:42.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-08 16:01:42.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.849][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-08 16:01:42.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-08 16:01:42.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.853][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-08 16:01:42.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-08 16:01:42.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.857][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-08 16:01:42.858][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-08 16:01:42.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.859][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.860][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-08 16:01:42.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-08 16:01:42.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.870][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-08 16:01:42.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-08 16:01:42.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.874][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-08 16:01:42.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-08 16:01:42.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.878][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-08 16:01:42.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-08 16:01:42.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.882][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-08 16:01:42.883][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-08 16:01:42.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.884][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.885][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-08 16:01:42.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-08 16:01:42.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.895][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:42.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:42.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.899][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:42.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:42.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.903][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:42.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:42.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.907][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:42.908][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:42.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.909][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.910][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:42.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:42.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.920][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-08 16:01:42.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-08 16:01:42.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.924][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-08 16:01:42.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-08 16:01:42.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.928][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-08 16:01:42.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-08 16:01:42.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.932][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-08 16:01:42.933][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-08 16:01:42.933][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.934][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.935][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-08 16:01:42.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-08 16:01:42.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.945][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-08 16:01:42.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-08 16:01:42.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.949][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-08 16:01:42.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-08 16:01:42.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.953][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-08 16:01:42.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-08 16:01:42.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.957][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-08 16:01:42.958][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-08 16:01:42.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.959][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.960][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-08 16:01:42.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-08 16:01:42.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.971][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-08 16:01:42.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-08 16:01:42.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.974][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-08 16:01:42.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-08 16:01:42.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.978][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-08 16:01:42.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-08 16:01:42.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.982][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-08 16:01:42.983][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-08 16:01:42.984][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.985][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.986][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-08 16:01:42.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-08 16:01:42.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:42.996][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:42.997][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:42.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:42.998][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.002][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-08 16:01:43.007][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-08 16:01:43.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.009][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.012][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-08 16:01:43.013][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-08 16:01:43.014][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.015][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.019][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-08 16:01:43.020][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-08 16:01:43.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.022][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.025][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-08 16:01:43.026][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-08 16:01:43.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.028][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.032][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:43.033][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:43.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.035][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.038][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:43.039][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:43.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.041][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.045][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:43.046][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:43.047][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.048][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.051][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-08 16:01:43.052][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-08 16:01:43.053][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.054][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.058][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-08 16:01:43.059][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-08 16:01:43.060][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.061][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.065][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-08 16:01:43.066][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-08 16:01:43.067][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.067][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.083][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-2528-content.xml".
biodb.DEBUG[2025-11-08 16:01:43.115][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-08 16:01:43.116][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-08 16:01:43.118][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-08 16:01:43.119][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-08 16:01:43.120][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-08 16:01:43.124][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:43.125][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:43.125][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:43.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-08 16:01:43.128][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:43.129][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:43.130][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.131][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.132][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:43.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:43.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.151][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-08 16:01:43.152][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-08 16:01:43.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.154][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.155][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-08 16:01:43.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-08 16:01:43.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.163][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-08 16:01:43.164][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-08 16:01:43.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.166][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.167][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-08 16:01:43.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-08 16:01:43.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.171][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-08 16:01:43.172][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-08 16:01:43.173][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.174][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.175][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-08 16:01:43.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-08 16:01:43.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.179][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-08 16:01:43.180][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-08 16:01:43.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.182][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.183][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-08 16:01:43.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-08 16:01:43.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.186][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:43.187][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:43.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.189][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.190][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:43.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:43.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.194][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-08 16:01:43.195][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:43.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.197][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.198][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-08 16:01:43.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:43.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.202][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:43.203][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:43.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.205][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.206][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:43.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:43.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.210][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-08 16:01:43.211][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-08 16:01:43.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.212][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.214][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-08 16:01:43.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-08 16:01:43.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.217][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-08 16:01:43.218][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-08 16:01:43.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.220][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.221][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-08 16:01:43.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-08 16:01:43.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.225][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-08 16:01:43.226][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-08 16:01:43.227][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.228][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.229][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-08 16:01:43.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-08 16:01:43.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.233][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:01:43.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:01:43.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.237][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:01:43.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:01:43.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:43.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:43.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.244][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:01:43.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:01:43.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:43.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:43.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.252][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:43.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:43.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.255][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:43.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:43.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.259][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:43.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:43.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:43.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:43.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.267][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:43.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:43.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-08 16:01:43.270][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 2528.
biodb.TRACE[2025-11-08 16:01:43.290][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-08 16:01:43.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-08 16:01:43.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.294][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-08 16:01:43.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-08 16:01:43.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.297][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-08 16:01:43.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-08 16:01:43.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.301][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-08 16:01:43.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-08 16:01:43.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.305][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:43.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:43.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.309][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:43.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:43.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.312][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-08 16:01:43.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-08 16:01:43.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.316][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-08 16:01:43.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-08 16:01:43.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.320][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-11-08 16:01:43.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-11-08 16:01:43.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.327][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-11-08 16:01:43.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-11-08 16:01:43.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.332][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:43.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:43.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.339][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:01:43.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:01:43.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.346][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:43.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:43.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.350][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:43.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:43.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:43.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:43.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.359][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:43.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:43.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:43.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:43.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.366][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:43.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:43.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.370][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:01:43.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:01:43.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.374][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:01:43.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:01:43.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.378][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:01:43.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:01:43.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.396][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:43.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:43.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:43.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:43.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.403][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:43.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:43.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.407][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:43.408][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:43.409][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.410][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:43.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:43.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.421][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:01:43.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:01:43.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.425][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:01:43.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:01:43.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.428][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:01:43.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:01:43.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.432][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:01:43.433][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:01:43.434][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.435][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.436][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:01:43.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:01:43.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.446][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-08 16:01:43.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-08 16:01:43.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.449][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-08 16:01:43.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-08 16:01:43.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.453][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-08 16:01:43.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-08 16:01:43.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.457][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-08 16:01:43.458][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-08 16:01:43.459][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.460][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.461][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-08 16:01:43.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-08 16:01:43.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.471][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-08 16:01:43.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-08 16:01:43.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.474][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-08 16:01:43.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-08 16:01:43.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.478][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-08 16:01:43.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-08 16:01:43.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.482][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-08 16:01:43.483][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-08 16:01:43.484][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.485][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.485][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-08 16:01:43.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-08 16:01:43.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.499][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-08 16:01:43.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:43.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.503][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:43.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:43.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.507][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:43.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:43.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.510][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-08 16:01:43.511][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:43.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.513][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.514][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-08 16:01:43.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:43.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.524][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:43.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:43.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.528][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:43.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:43.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.531][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:43.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:43.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.535][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:43.536][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:43.537][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.538][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.539][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:43.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:43.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.549][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:43.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:43.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.553][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:43.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:43.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.556][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:43.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:43.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.560][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:43.561][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:43.562][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.563][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.564][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:43.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:43.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.574][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-08 16:01:43.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-08 16:01:43.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.578][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-08 16:01:43.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-08 16:01:43.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.581][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-08 16:01:43.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-08 16:01:43.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.585][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-08 16:01:43.586][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-08 16:01:43.587][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.588][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.589][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-08 16:01:43.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-08 16:01:43.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.599][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-08 16:01:43.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-08 16:01:43.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.602][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-08 16:01:43.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-08 16:01:43.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.606][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-08 16:01:43.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-08 16:01:43.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.610][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-08 16:01:43.611][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-08 16:01:43.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.613][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.614][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-08 16:01:43.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-08 16:01:43.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.623][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:43.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:43.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.627][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:43.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:43.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.631][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:43.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:43.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.635][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:43.636][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:43.637][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.637][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.638][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:43.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:43.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.648][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-08 16:01:43.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-08 16:01:43.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.652][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-08 16:01:43.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-08 16:01:43.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.656][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-08 16:01:43.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-08 16:01:43.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.660][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-08 16:01:43.664][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-08 16:01:43.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.666][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.667][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-08 16:01:43.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-08 16:01:43.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.677][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-08 16:01:43.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-08 16:01:43.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.681][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-08 16:01:43.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-08 16:01:43.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.684][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-08 16:01:43.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-08 16:01:43.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.688][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-08 16:01:43.689][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-08 16:01:43.690][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.691][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.692][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-08 16:01:43.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-08 16:01:43.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.702][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-08 16:01:43.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-08 16:01:43.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.706][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-08 16:01:43.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-08 16:01:43.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.709][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-08 16:01:43.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-08 16:01:43.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.713][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-08 16:01:43.714][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-08 16:01:43.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.716][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.717][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-08 16:01:43.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-08 16:01:43.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.727][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:43.728][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:43.729][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.730][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.734][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-08 16:01:43.735][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-08 16:01:43.736][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.736][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.740][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-08 16:01:43.741][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-08 16:01:43.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.743][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.747][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-08 16:01:43.748][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-08 16:01:43.749][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.750][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.753][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-08 16:01:43.754][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-08 16:01:43.755][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.756][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.760][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:43.761][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:43.762][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.763][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.766][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:43.767][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:43.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.769][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.773][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:43.774][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:43.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.776][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.779][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-08 16:01:43.780][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-08 16:01:43.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.782][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.786][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-08 16:01:43.787][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-08 16:01:43.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.789][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.792][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-08 16:01:43.793][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-08 16:01:43.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.795][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.799][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-7799-content.xml".
biodb.DEBUG[2025-11-08 16:01:43.800][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-08 16:01:43.802][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-08 16:01:43.803][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-08 16:01:43.804][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-08 16:01:43.805][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-08 16:01:43.809][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:43.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:43.810][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:43.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-08 16:01:43.813][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:43.814][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:43.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.816][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.817][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:43.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:43.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.821][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-08 16:01:43.822][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-08 16:01:43.823][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.824][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.825][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-08 16:01:43.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-08 16:01:43.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.833][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-08 16:01:43.834][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-08 16:01:43.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.836][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.837][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-08 16:01:43.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-08 16:01:43.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.841][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-08 16:01:43.842][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-08 16:01:43.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.843][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.845][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-08 16:01:43.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-08 16:01:43.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.848][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-08 16:01:43.849][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-08 16:01:43.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.851][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.852][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-08 16:01:43.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-08 16:01:43.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.856][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:43.857][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:43.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.859][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.860][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:43.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:43.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.864][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-08 16:01:43.865][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:43.866][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.867][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.868][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-08 16:01:43.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:43.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.872][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:43.873][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:43.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.874][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.876][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:43.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:43.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.879][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-08 16:01:43.880][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-08 16:01:43.881][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.882][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.884][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-08 16:01:43.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-08 16:01:43.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.887][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-08 16:01:43.888][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-08 16:01:43.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.890][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.891][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-08 16:01:43.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-08 16:01:43.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.895][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-08 16:01:43.896][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-08 16:01:43.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.898][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.899][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-08 16:01:43.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-08 16:01:43.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.903][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:01:43.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:01:43.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.907][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:01:43.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:01:43.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:43.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:43.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.914][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:01:43.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:01:43.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:43.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:43.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.922][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:43.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:43.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.925][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:43.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:43.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.929][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:43.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:43.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.933][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:43.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:43.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.937][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:43.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:43.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-08 16:01:43.940][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 7799.
biodb.TRACE[2025-11-08 16:01:43.942][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-08 16:01:43.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-08 16:01:43.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.946][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-08 16:01:43.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-08 16:01:43.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.950][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-08 16:01:43.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-08 16:01:43.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.954][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-08 16:01:43.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-08 16:01:43.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.957][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:43.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:43.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.961][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:43.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:43.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.965][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-08 16:01:43.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-08 16:01:43.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.969][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-08 16:01:43.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-08 16:01:43.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.972][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-11-08 16:01:43.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-11-08 16:01:43.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.976][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-11-08 16:01:43.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-11-08 16:01:43.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.981][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:43.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:43.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.988][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:01:43.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:01:43.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.995][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:43.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:43.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:43.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:43.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:43.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:44.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:44.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:44.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:44.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:44.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.015][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:44.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:44.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:44.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:44.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.022][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:01:44.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:01:44.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.026][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:01:44.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:01:44.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.030][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:01:44.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:01:44.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.038][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:44.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:44.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.042][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:44.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:44.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:44.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:44.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.050][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:44.051][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:44.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.053][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:44.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:44.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.064][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-08 16:01:44.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-08 16:01:44.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.067][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-08 16:01:44.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-08 16:01:44.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.071][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-08 16:01:44.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-08 16:01:44.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.075][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-08 16:01:44.076][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-08 16:01:44.077][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.078][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.079][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-08 16:01:44.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-08 16:01:44.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.089][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-08 16:01:44.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-08 16:01:44.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.093][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-08 16:01:44.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-08 16:01:44.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.096][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-08 16:01:44.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-08 16:01:44.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.100][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-08 16:01:44.101][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-08 16:01:44.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.103][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.104][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-08 16:01:44.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-08 16:01:44.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.114][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-08 16:01:44.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-08 16:01:44.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.118][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-08 16:01:44.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-08 16:01:44.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.121][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-08 16:01:44.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-08 16:01:44.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.125][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-08 16:01:44.126][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-08 16:01:44.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.128][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.129][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-08 16:01:44.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-08 16:01:44.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.139][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:44.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:44.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.143][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:44.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:44.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.147][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:44.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:44.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.150][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:44.151][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:44.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.153][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.154][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:44.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:44.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.164][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:44.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:44.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.168][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:44.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:44.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.176][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:44.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:44.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.180][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:44.181][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:44.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.182][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.183][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:44.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:44.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.193][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:44.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:44.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.197][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:44.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:44.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.201][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:44.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:44.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.205][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:44.206][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:44.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.208][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.209][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:44.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:44.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.219][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-08 16:01:44.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-08 16:01:44.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.223][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-08 16:01:44.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-08 16:01:44.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.226][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-08 16:01:44.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-08 16:01:44.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.230][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-08 16:01:44.231][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-08 16:01:44.232][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.233][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.234][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-08 16:01:44.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-08 16:01:44.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.244][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-08 16:01:44.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-08 16:01:44.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.248][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-08 16:01:44.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-08 16:01:44.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.252][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-08 16:01:44.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-08 16:01:44.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.255][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-08 16:01:44.256][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-08 16:01:44.257][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.258][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.259][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-08 16:01:44.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-08 16:01:44.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.269][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-08 16:01:44.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-08 16:01:44.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.273][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-08 16:01:44.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-08 16:01:44.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.277][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-08 16:01:44.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-08 16:01:44.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.281][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-08 16:01:44.282][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-08 16:01:44.283][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.284][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.284][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-08 16:01:44.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-08 16:01:44.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.295][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-08 16:01:44.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-08 16:01:44.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.299][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-08 16:01:44.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-08 16:01:44.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.302][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-08 16:01:44.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-08 16:01:44.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.306][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-08 16:01:44.307][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-08 16:01:44.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.309][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.310][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-08 16:01:44.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-08 16:01:44.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.320][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:01:44.321][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:01:44.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.323][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.327][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-08 16:01:44.328][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-08 16:01:44.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.330][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.334][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-08 16:01:44.335][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-08 16:01:44.336][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.336][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.340][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-08 16:01:44.341][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-08 16:01:44.346][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.347][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.351][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-08 16:01:44.352][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-08 16:01:44.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.354][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.358][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:44.359][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-08 16:01:44.360][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.361][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.364][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:44.365][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-08 16:01:44.366][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.367][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.371][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:44.372][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:01:44.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.374][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.378][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-08 16:01:44.379][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-08 16:01:44.380][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.381][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.384][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-08 16:01:44.385][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-08 16:01:44.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.387][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:01:44.391][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-08 16:01:44.392][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-08 16:01:44.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:01:44.394][ef$get] fields variable is a list.
biodb.INFO [2025-11-08 16:01:44.400][biodb::testThat]
biodb.INFO [2025-11-08 16:01:44.401][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-11-08 16:01:44.402][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-08 16:01:44.403][biodb::testThat]
biodb.DEBUG[2025-11-08 16:01:44.405][private$loadEntries] Creating entries from ids [3]: "15440, 2528, 7799".
biodb.DEBUG[2025-11-08 16:01:44.407][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-11-08 16:01:44.410][cch$loadContents] Load 3 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2025-11-08 16:01:44.412][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-08 16:01:44.413][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-11-08 16:01:44.414][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-11-08 16:01:44.415][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-11-08 16:01:44.420][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-08 16:01:44.421][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-08 16:01:44.422][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-08 16:01:44.426][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:44.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:44.428][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:44.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-08 16:01:44.431][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
fscache.INFO [2025-11-08 16:01:44.450][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2025-11-08 16:01:44.451][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-08 16:01:44.452][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-08 16:01:44.453][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-11-08 16:01:45.265][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2025-11-08 16:01:45.266][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-08 16:01:45.267][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-08 16:01:45.268][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2025-11-08 16:01:46.141][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-11-08 16:01:46.144][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-08 16:01:46.147][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-08 16:01:46.150][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-11-08 16:01:46.727][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2025-11-08 16:01:46.730][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-08 16:01:46.732][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-08 16:01:46.734][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2025-11-08 16:01:47.203][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-11-08 16:01:47.206][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-08 16:01:47.208][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-08 16:01:47.212][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-11-08 16:01:47.551][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2025-11-08 16:01:47.554][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-08 16:01:47.556][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-08 16:01:47.559][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2025-11-08 16:01:48.025][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-11-08 16:01:48.027][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-08 16:01:48.029][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-08 16:01:48.031][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-11-08 16:01:48.364][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2025-11-08 16:01:48.366][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-08 16:01:48.368][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-08 16:01:48.369][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2025-11-08 16:01:48.908][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-11-08 16:01:48.910][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-08 16:01:48.911][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-08 16:01:48.913][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-11-08 16:01:49.269][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2025-11-08 16:01:49.270][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-08 16:01:49.272][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-08 16:01:49.273][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2025-11-08 16:01:49.805][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-11-08 16:01:49.806][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-08 16:01:49.807][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-08 16:01:49.809][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-11-08 16:01:50.148][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2025-11-08 16:01:50.150][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-08 16:01:50.151][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-08 16:01:50.152][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2025-11-08 16:01:50.686][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-11-08 16:01:50.688][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-08 16:01:50.689][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-08 16:01:50.690][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-11-08 16:01:51.023][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2025-11-08 16:01:51.025][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-08 16:01:51.026][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-08 16:01:51.027][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2025-11-08 16:01:51.579][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-11-08 16:01:51.581][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-08 16:01:51.582][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-08 16:01:51.583][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-11-08 16:01:51.929][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2025-11-08 16:01:51.930][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-08 16:01:51.931][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-08 16:01:51.932][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2025-11-08 16:01:52.474][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-11-08 16:01:52.478][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-08 16:01:52.481][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-08 16:01:52.486][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-11-08 16:01:52.834][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2025-11-08 16:01:52.837][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-08 16:01:52.839][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-08 16:01:52.842][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2025-11-08 16:01:53.373][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-11-08 16:01:53.375][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-08 16:01:53.376][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-08 16:01:53.378][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-11-08 16:01:53.711][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2025-11-08 16:01:53.712][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-08 16:01:53.713][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-08 16:01:53.715][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2025-11-08 16:01:54.246][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
biodb.DEBUG[2025-11-08 16:01:54.248][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-08 16:01:54.249][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-08 16:01:54.250][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-08 16:01:54.255][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:01:54.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:01:54.257][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:01:54.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-08 16:01:54.277][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
fscache.INFO [2025-11-08 16:01:54.309][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2025-11-08 16:01:54.325][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-08 16:01:54.326][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-08 16:01:54.328][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-11-08 16:01:54.658][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-11-08 16:01:54.659][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-08 16:01:54.661][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-08 16:01:54.662][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-11-08 16:01:55.196][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2025-11-08 16:01:55.198][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-08 16:01:55.201][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-08 16:01:55.204][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-11-08 16:01:55.553][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-11-08 16:01:55.556][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-08 16:01:55.558][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-08 16:01:55.561][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-11-08 16:01:56.095][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2025-11-08 16:01:56.097][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-08 16:01:56.100][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-08 16:01:56.103][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-11-08 16:01:56.443][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-11-08 16:01:56.447][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-08 16:01:56.449][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-08 16:01:56.452][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-11-08 16:01:57.048][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2025-11-08 16:01:57.051][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-08 16:01:57.053][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-08 16:01:57.057][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-11-08 16:01:57.410][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-11-08 16:01:57.411][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-08 16:01:57.412][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-08 16:01:57.413][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-11-08 16:01:57.954][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2025-11-08 16:01:57.957][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-08 16:01:57.959][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-08 16:01:57.962][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-11-08 16:01:58.299][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-11-08 16:01:58.301][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-08 16:01:58.304][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-08 16:01:58.306][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-11-08 16:01:58.883][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2025-11-08 16:01:58.886][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-08 16:01:58.890][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-08 16:01:58.894][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-11-08 16:01:59.232][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-11-08 16:01:59.234][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-08 16:01:59.235][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-08 16:01:59.236][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-11-08 16:01:59.770][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2025-11-08 16:01:59.771][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-08 16:01:59.773][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-08 16:01:59.789][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-11-08 16:02:00.119][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-11-08 16:02:00.120][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-08 16:02:00.121][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-08 16:02:00.122][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-11-08 16:02:00.697][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2025-11-08 16:02:00.698][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-08 16:02:00.699][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-08 16:02:00.700][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-11-08 16:02:01.029][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-11-08 16:02:01.030][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-08 16:02:01.032][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-08 16:02:01.033][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-11-08 16:02:01.563][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2025-11-08 16:02:01.564][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-08 16:02:01.565][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-08 16:02:01.566][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-11-08 16:02:01.929][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-11-08 16:02:01.930][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-08 16:02:01.932][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-08 16:02:01.933][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-11-08 16:02:02.467][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2025-11-08 16:02:02.469][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-08 16:02:02.472][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-08 16:02:02.475][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-11-08 16:02:02.812][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-11-08 16:02:02.815][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-08 16:02:02.817][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-08 16:02:02.820][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-11-08 16:02:03.263][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
biodb.DEBUG[2025-11-08 16:02:03.266][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-08 16:02:03.269][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-08 16:02:03.271][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-08 16:02:03.282][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:02:03.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:02:03.287][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:02:03.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-08 16:02:03.292][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
fscache.INFO [2025-11-08 16:02:03.297][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2025-11-08 16:02:03.300][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-08 16:02:03.302][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-08 16:02:03.305][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-11-08 16:02:03.642][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2025-11-08 16:02:03.644][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-08 16:02:03.645][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-08 16:02:03.647][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2025-11-08 16:02:04.089][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-11-08 16:02:04.092][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-08 16:02:04.094][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-08 16:02:04.097][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-11-08 16:02:04.434][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2025-11-08 16:02:04.436][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-08 16:02:04.438][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-08 16:02:04.441][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2025-11-08 16:02:04.886][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-11-08 16:02:04.889][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-08 16:02:04.891][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-08 16:02:04.894][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-11-08 16:02:05.232][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2025-11-08 16:02:05.234][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-08 16:02:05.236][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-08 16:02:05.239][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2025-11-08 16:02:05.694][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-11-08 16:02:05.697][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-08 16:02:05.699][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-08 16:02:05.702][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-11-08 16:02:06.038][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2025-11-08 16:02:06.040][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-08 16:02:06.043][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-08 16:02:06.045][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2025-11-08 16:02:06.493][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-11-08 16:02:06.495][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-08 16:02:06.498][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-08 16:02:06.501][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-11-08 16:02:06.839][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2025-11-08 16:02:06.841][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-08 16:02:06.844][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-08 16:02:06.846][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2025-11-08 16:02:07.294][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-11-08 16:02:07.298][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-08 16:02:07.301][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-08 16:02:07.305][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-11-08 16:02:07.642][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2025-11-08 16:02:07.645][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-08 16:02:07.647][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-08 16:02:07.649][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2025-11-08 16:02:08.096][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-11-08 16:02:08.100][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-08 16:02:08.103][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-08 16:02:08.107][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-11-08 16:02:08.443][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2025-11-08 16:02:08.446][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-08 16:02:08.448][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-08 16:02:08.451][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2025-11-08 16:02:08.891][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-11-08 16:02:08.892][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-08 16:02:08.893][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-08 16:02:08.895][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-11-08 16:02:09.224][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2025-11-08 16:02:09.225][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-08 16:02:09.226][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-08 16:02:09.228][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2025-11-08 16:02:09.757][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-11-08 16:02:09.758][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-08 16:02:09.759][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-08 16:02:09.760][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-11-08 16:02:10.093][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2025-11-08 16:02:10.095][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-08 16:02:10.096][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-08 16:02:10.097][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2025-11-08 16:02:10.539][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-11-08 16:02:10.542][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-08 16:02:10.544][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-08 16:02:10.547][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-11-08 16:02:10.899][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2025-11-08 16:02:10.901][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-08 16:02:10.902][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-08 16:02:10.903][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2025-11-08 16:02:11.438][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
fscache.INFO [2025-11-08 16:02:11.440][cch$saveContents] Save 3 contents to /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2025-11-08 16:02:11.442][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-11-08 16:02:11.443][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-11-08 16:02:11.445][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-11-08 16:02:11.447][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-08 16:02:11.448][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-08 16:02:11.449][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-08 16:02:11.454][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:02:11.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:02:11.456][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:02:11.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-08 16:02:11.460][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:02:11.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:02:11.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:02:11.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:02:11.464][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:02:11.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:02:11.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:02:11.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:02:11.468][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:02:11.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:02:11.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:02:11.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-08 16:02:11.473][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-08 16:02:11.474][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-08 16:02:11.475][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-08 16:02:11.480][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:02:11.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:02:11.482][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:02:11.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-08 16:02:11.485][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:02:11.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:02:11.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:02:11.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:02:11.502][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:02:11.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:02:11.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:02:11.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:02:11.507][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:02:11.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:02:11.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:02:11.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-08 16:02:11.511][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-08 16:02:11.512][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-08 16:02:11.513][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-08 16:02:11.517][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:02:11.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:02:11.519][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:02:11.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-08 16:02:11.522][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:02:11.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:02:11.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:02:11.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:02:11.526][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-08 16:02:11.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-08 16:02:11.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:02:11.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:02:11.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:02:11.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:02:11.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:02:11.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:02:11.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:02:11.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:02:11.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:02:11.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:02:11.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:02:11.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:02:11.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:02:11.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:02:11.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:02:11.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:02:11.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:02:11.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:02:11.547][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:02:11.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:02:11.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:02:11.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:02:11.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:02:11.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:02:11.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:02:11.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:02:11.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:02:11.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:02:11.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:02:11.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:02:11.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:02:11.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:02:11.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:02:11.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:02:11.563][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:02:11.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:02:11.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:02:11.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:02:11.568][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:02:11.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:02:11.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:02:11.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:02:11.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:02:11.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:02:11.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:02:11.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:02:11.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:02:11.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:02:11.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:02:11.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:02:11.580][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:02:11.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:02:11.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:02:11.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:02:11.584][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:02:11.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:02:11.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:02:11.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:02:11.588][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:02:11.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:02:11.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:02:11.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:02:11.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-08 16:02:11.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-08 16:02:11.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:02:11.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-08 16:02:11.596][self$createEntryFromContent] Accession numbers: NA, NA, NA.
biodb.DEBUG[2025-11-08 16:02:11.597][self$createEntryFromContent] Found 3 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-11-08 16:02:11.636][biodb::testThat]
biodb.INFO [2025-11-08 16:02:11.637][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-11-08 16:02:11.638][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-08 16:02:11.639][biodb::testThat]
biodb.TRACE[2025-11-08 16:02:11.641][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-08 16:02:11.643][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-08 16:02:11.643][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:02:11.644][ef$get] fields variable is a list.
biodb.DEBUG[2025-11-08 16:02:11.646][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.INFO [2025-11-08 16:02:11.809][biodb::testThat]
biodb.INFO [2025-11-08 16:02:11.810][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-11-08 16:02:11.811][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-08 16:02:11.812][biodb::testThat]
biodb.INFO [2025-11-08 16:02:11.857][biodb::testThat]
biodb.INFO [2025-11-08 16:02:11.858][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-11-08 16:02:11.859][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-08 16:02:11.860][biodb::testThat]
biodb.INFO [2025-11-08 16:02:11.893][biodb::testThat]
biodb.INFO [2025-11-08 16:02:11.894][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-11-08 16:02:11.895][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-08 16:02:11.896][biodb::testThat]
biodb.INFO [2025-11-08 16:02:11.903][biodb::testThat]
biodb.INFO [2025-11-08 16:02:11.904][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-11-08 16:02:11.905][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-08 16:02:11.906][biodb::testThat]
biodb.INFO [2025-11-08 16:02:11.912][biodb::testThat]
biodb.INFO [2025-11-08 16:02:11.913][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-11-08 16:02:11.914][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-08 16:02:11.915][biodb::testThat]
biodb.DEBUG[2025-11-08 16:02:11.918][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-11-08 16:02:12.454][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-11-08 16:02:12.807][biodb::testThat]
biodb.INFO [2025-11-08 16:02:12.809][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-11-08 16:02:12.810][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-08 16:02:12.812][biodb::testThat]
biodb.TRACE[2025-11-08 16:02:12.843][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-08 16:02:12.844][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-08 16:02:12.845][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:02:12.847][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:02:12.848][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:02:12.849][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:02:12.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:02:12.852][ef$get] fields variable is a list.
biodb.INFO [2025-11-08 16:02:12.854][biodb::testThat]
biodb.INFO [2025-11-08 16:02:12.855][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-11-08 16:02:12.856][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-08 16:02:12.857][biodb::testThat]
biodb.INFO [2025-11-08 16:02:12.899][biodb::testThat]
biodb.INFO [2025-11-08 16:02:12.900][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-11-08 16:02:12.901][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-08 16:02:12.902][biodb::testThat]
biodb.INFO [2025-11-08 16:02:12.915][biodb::testThat]
biodb.INFO [2025-11-08 16:02:12.916][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-11-08 16:02:12.917][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-08 16:02:12.918][biodb::testThat]
biodb.INFO [2025-11-08 16:02:12.931][biodb::testThat]
biodb.INFO [2025-11-08 16:02:12.932][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-11-08 16:02:12.933][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-08 16:02:12.934][biodb::testThat]
biodb.TRACE[2025-11-08 16:02:12.947][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-08 16:02:12.948][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-08 16:02:12.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:02:12.949][ef$get] fields variable is a list.
biodb.TRACE[2025-11-08 16:02:12.950][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:02:12.951][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-08 16:02:12.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-08 16:02:12.953][ef$get] fields variable is a list.
biodb.INFO [2025-11-08 16:02:12.955][biodb::testThat]
biodb.INFO [2025-11-08 16:02:12.956][biodb::testThat] Running test function  test.annotateMzValues_real_values  (" annotateMzValues() works correctly with real values. ").
biodb.INFO [2025-11-08 16:02:12.956][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-08 16:02:12.957][biodb::testThat]
biodb.INFO [2025-11-08 16:02:12.970][biodb::testThat]
biodb.INFO [2025-11-08 16:02:12.971][biodb::testThat] Running test function  test_annotateMzValues_additional_fields  (" Additional fields are accepted in annotateMzValues() ").
biodb.INFO [2025-11-08 16:02:12.972][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-08 16:02:12.973][biodb::testThat]
biodb.INFO [2025-11-08 16:02:12.990][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-11-08 16:02:12.991][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-11-08 16:02:12.992][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-11-08 16:02:12.993][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-08 16:02:12.994][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-08 16:02:12.995][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-08 16:02:12.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-08 16:02:12.996][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-11-08 16:02:12.997][FUN] Functions in observer 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 0 | PASS 220 ]

══ 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, arg = "object")
 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 ──
!is.null(entry) is not TRUE

`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. ──
!is.null(entry) is not TRUE

`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. ──
any(vapply(entries, is.null, FUN.VALUE = TRUE)) is not FALSE

`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. ──
`e` inherits from `'NULL'` not `'character'`.
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 ──────
!is.null(entry) is not TRUE

`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 0 | PASS 220 ]
Error: Test failures
Execution halted

'R CMD check' output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.23-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_1.17.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck’
* using R Under development (unstable) (2025-10-20 r88955)
* 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 ‘1.17.0’
* 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:
   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 0 | PASS 220 ]
  Error: Test failures
  Execution halted
* DONE

Status: 1 ERROR
See
  ‘/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck/00check.log’
for details.

Installation output

biodbChebi.Rcheck/00install.out

* installing *source* package ‘biodbChebi’ ...
** this is package ‘biodbChebi’ version ‘1.17.0’
** 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)