Back to Long Tests report for BioC 3.22

This page was generated on 2025-11-29 23:55 -0500 (Sat, 29 Nov 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.2 (2025-10-31) -- "[Not] Part in a Rumble" 4878
merida1macOS 12.7.6 Montereyx86_644.5.2 (2025-10-31) -- "[Not] Part in a Rumble" 4624
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

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

CHECK results for biodbChebi on nebbiolo2

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

raw results


Summary

Package: biodbChebi
Version: 1.16.0
Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbChebi_1.16.0.tar.gz
StartedAt: 2025-11-29 16:01:23 -0500 (Sat, 29 Nov 2025)
EndedAt: 2025-11-29 16:02:38 -0500 (Sat, 29 Nov 2025)
EllapsedTime: 75.0 seconds
RetCode: 1
Status:   ERROR  
CheckDir: biodbChebi.Rcheck
Warnings: NA

Tests output

biodbChebi.Rcheck/tests/testthat.Rout.fail


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

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> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2025-11-29 16:02:00.598][biodb::testContext]
biodb.INFO [2025-11-29 16:02:00.600][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-29 16:02:00.608][biodb::testContext] Test context - Generic long tests
biodb.INFO [2025-11-29 16:02:00.609][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-29 16:02:00.610][biodb::testContext]
biodb.INFO [2025-11-29 16:02:00.616][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2025-11-29 16:02:00.617][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-11-29 16:02:00.624][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-29 16:02:00.624][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-11-29 16:02:00.625][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-11-29 16:02:00.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:00.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:00.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-29 16:02:00.629][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-11-29 16:02:00.645][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-11-29 16:02:00.646][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:00.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:00.647][FUN] Functions in observer BiodbConfig: [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[2025-11-29 16:02:00.648][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-11-29 16:02:00.649][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-11-29 16:02:00.650][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:00.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:00.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-29 16:02:00.653][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-11-29 16:02:00.653][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-11-29 16:02:00.654][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-11-29 16:02:00.655][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:00.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:00.657][FUN] Functions in observer BiodbConfig: [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[2025-11-29 16:02:00.658][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-11-29 16:02:00.659][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-11-29 16:02:00.660][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-11-29 16:02:00.660][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:00.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:00.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-29 16:02:00.663][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-11-29 16:02:00.664][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-11-29 16:02:00.665][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:00.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:00.666][FUN] Functions in observer BiodbConfig: [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[2025-11-29 16:02:00.667][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-11-29 16:02:00.668][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-11-29 16:02:00.669][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-11-29 16:02:00.670][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:00.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:00.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-29 16:02:00.673][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-11-29 16:02:00.674][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-11-29 16:02:00.674][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:00.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:00.676][FUN] Functions in observer BiodbConfig: [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[2025-11-29 16:02:00.677][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-11-29 16:02:00.678][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-11-29 16:02:00.679][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-11-29 16:02:00.680][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:00.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:00.681][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-29 16:02:00.682][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-11-29 16:02:00.683][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-11-29 16:02:00.684][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-11-29 16:02:00.685][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-11-29 16:02:00.686][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-11-29 16:02:00.687][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-11-29 16:02:00.688][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:00.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:00.689][FUN] Functions in observer BiodbConfig: [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[2025-11-29 16:02:00.690][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-11-29 16:02:00.691][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-11-29 16:02:00.692][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:00.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:00.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-29 16:02:00.694][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-11-29 16:02:00.695][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-11-29 16:02:00.696][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:00.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:00.698][FUN] Functions in observer BiodbConfig: [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[2025-11-29 16:02:00.699][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-11-29 16:02:00.700][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-11-29 16:02:00.700][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:00.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:00.702][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-29 16:02:00.703][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-11-29 16:02:00.704][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-11-29 16:02:00.705][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-11-29 16:02:00.706][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:00.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:00.707][FUN] Functions in observer BiodbConfig: [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[2025-11-29 16:02:00.708][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-11-29 16:02:00.709][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-11-29 16:02:00.713][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-11-29 16:02:00.714][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:00.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:00.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-29 16:02:00.717][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-11-29 16:02:00.718][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-11-29 16:02:00.719][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-11-29 16:02:00.719][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:00.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:00.721][FUN] Functions in observer BiodbConfig: [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[2025-11-29 16:02:00.724][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-11-29 16:02:00.755][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-29 16:02:00.769][self$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[2025-11-29 16:02:00.770][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-29 16:02:00.771][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-29 16:02:00.772][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-29 16:02:00.773][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-29 16:02:00.774][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-29 16:02:00.775][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-29 16:02:00.776][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-29 16:02:00.776][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-29 16:02:00.777][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-29 16:02:00.778][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-11-29 16:02:00.779][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-29 16:02:00.780][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-29 16:02:00.781][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-29 16:02:00.782][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-29 16:02:00.782][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-29 16:02:00.782][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-29 16:02:00.782][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-29 16:02:00.782][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-29 16:02:00.783][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-29 16:02:00.784][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-29 16:02:00.785][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-29 16:02:00.786][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-29 16:02:00.786][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-29 16:02:00.787][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-29 16:02:00.788][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-29 16:02:00.789][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-29 16:02:00.790][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-29 16:02:00.791][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-29 16:02:00.792][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-29 16:02:00.793][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-29 16:02:00.794][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-11-29 16:02:00.795][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-29 16:02:00.796][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-11-29 16:02:00.802][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-29 16:02:00.803][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-29 16:02:00.804][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-29 16:02:00.805][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-29 16:02:00.806][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-29 16:02:00.807][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-29 16:02:00.808][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-29 16:02:00.809][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-29 16:02:00.810][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-29 16:02:00.811][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-11-29 16:02:00.811][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-29 16:02:00.812][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-29 16:02:00.813][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-29 16:02:00.814][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-29 16:02:00.814][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-29 16:02:00.814][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-29 16:02:00.814][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-29 16:02:00.814][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-29 16:02:00.815][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-29 16:02:00.816][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-29 16:02:00.817][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-29 16:02:00.818][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-29 16:02:00.819][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-29 16:02:00.819][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-29 16:02:00.820][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-29 16:02:00.821][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-29 16:02:00.822][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-29 16:02:00.823][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-29 16:02:00.824][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-29 16:02:00.825][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-29 16:02:00.826][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-11-29 16:02:00.827][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-29 16:02:00.828][self$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[2025-11-29 16:02:00.829][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-29 16:02:00.830][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-29 16:02:00.831][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-29 16:02:00.832][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-29 16:02:00.833][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-29 16:02:00.834][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-29 16:02:00.835][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-29 16:02:00.836][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-29 16:02:00.836][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-29 16:02:00.837][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-11-29 16:02:00.838][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-29 16:02:00.839][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-29 16:02:00.840][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-29 16:02:00.841][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-29 16:02:00.842][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-29 16:02:00.843][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-29 16:02:00.844][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-29 16:02:00.845][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-29 16:02:00.845][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-29 16:02:00.846][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-29 16:02:00.847][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-29 16:02:00.848][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-29 16:02:00.849][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-29 16:02:00.850][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-29 16:02:00.851][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-29 16:02:00.852][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-29 16:02:00.853][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-11-29 16:02:00.854][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-29 16:02:00.855][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-11-29 16:02:00.856][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-29 16:02:00.857][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-29 16:02:00.858][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-29 16:02:00.859][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-29 16:02:00.860][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-29 16:02:00.861][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-29 16:02:00.862][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-29 16:02:00.862][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-29 16:02:00.863][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-29 16:02:00.864][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-11-29 16:02:00.865][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-29 16:02:00.866][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-29 16:02:00.867][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-29 16:02:00.868][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-29 16:02:00.869][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-29 16:02:00.870][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-29 16:02:00.871][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-29 16:02:00.872][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-29 16:02:00.872][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-29 16:02:00.873][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-29 16:02:00.874][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-29 16:02:00.875][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-29 16:02:00.876][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-29 16:02:00.877][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-29 16:02:00.878][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-29 16:02:00.879][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-29 16:02:00.882][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-29 16:02:00.883][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:00.884][FUN] Functions in observer BiodbConfig: [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[2025-11-29 16:02:00.885][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:00.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:00.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:00.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:00.888][FUN] Functions in observer BiodbConfig: [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[2025-11-29 16:02:00.889][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:00.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:00.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:00.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:00.892][FUN] Functions in observer BiodbConfig: [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[2025-11-29 16:02:00.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:00.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:00.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:00.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:00.896][FUN] Functions in observer BiodbConfig: [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[2025-11-29 16:02:00.897][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:00.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:00.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:00.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:00.900][FUN] Functions in observer BiodbConfig: [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[2025-11-29 16:02:00.901][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:00.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:00.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:00.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:00.904][FUN] Functions in observer BiodbConfig: [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[2025-11-29 16:02:00.905][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:00.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:00.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:00.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:00.909][FUN] Functions in observer BiodbConfig: [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[2025-11-29 16:02:00.909][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:00.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:00.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:00.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:00.913][FUN] Functions in observer BiodbConfig: [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[2025-11-29 16:02:00.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:00.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:00.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:00.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:00.917][FUN] Functions in observer BiodbConfig: [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[2025-11-29 16:02:00.918][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:00.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:00.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:00.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:00.921][FUN] Functions in observer BiodbConfig: [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[2025-11-29 16:02:00.922][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:00.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:00.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:00.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:00.925][FUN] Functions in observer BiodbConfig: [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[2025-11-29 16:02:00.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:00.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:00.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:00.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:00.929][FUN] Functions in observer BiodbConfig: [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[2025-11-29 16:02:00.930][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:00.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:00.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:00.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:00.933][FUN] Functions in observer BiodbConfig: [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[2025-11-29 16:02:00.934][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:00.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:00.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:00.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:00.937][FUN] Functions in observer BiodbConfig: [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[2025-11-29 16:02:00.938][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:00.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:00.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:00.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:00.941][FUN] Functions in observer BiodbConfig: [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[2025-11-29 16:02:00.942][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:00.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:00.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:00.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:00.946][FUN] Functions in observer BiodbConfig: [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[2025-11-29 16:02:00.946][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:00.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:00.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:00.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:00.950][FUN] Functions in observer BiodbConfig: [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[2025-11-29 16:02:00.951][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-11-29 16:02:00.955][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-11-29 16:02:00.956][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-11-29 16:02:00.957][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-11-29 16:02:00.959][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-29 16:02:00.960][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-11-29 16:02:00.961][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-11-29 16:02:00.963][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-11-29 16:02:00.964][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-11-29 16:02:00.965][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-11-29 16:02:00.967][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-29 16:02:00.968][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-11-29 16:02:00.969][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-11-29 16:02:00.970][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-11-29 16:02:00.972][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-11-29 16:02:00.973][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-11-29 16:02:00.974][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-11-29 16:02:00.976][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-11-29 16:02:00.977][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-29 16:02:00.978][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-11-29 16:02:00.980][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-11-29 16:02:00.981][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-11-29 16:02:00.989][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-11-29 16:02:00.991][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-11-29 16:02:00.992][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-11-29 16:02:00.994][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-11-29 16:02:00.995][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-11-29 16:02:01.013][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-11-29 16:02:01.014][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-11-29 16:02:01.016][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-11-29 16:02:01.017][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-11-29 16:02:01.018][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-11-29 16:02:01.020][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-11-29 16:02:01.021][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-11-29 16:02:01.022][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-11-29 16:02:01.024][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-11-29 16:02:01.025][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-11-29 16:02:01.027][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-11-29 16:02:01.028][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-11-29 16:02:01.029][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-11-29 16:02:01.031][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-11-29 16:02:01.032][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-11-29 16:02:01.034][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-11-29 16:02:01.035][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-11-29 16:02:01.037][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-11-29 16:02:01.038][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-11-29 16:02:01.039][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-11-29 16:02:01.041][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-11-29 16:02:01.042][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-11-29 16:02:01.044][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-11-29 16:02:01.045][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-11-29 16:02:01.047][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-11-29 16:02:01.048][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-11-29 16:02:01.050][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-11-29 16:02:01.051][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-11-29 16:02:01.052][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-11-29 16:02:01.054][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-11-29 16:02:01.055][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-11-29 16:02:01.057][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-11-29 16:02:01.058][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-11-29 16:02:01.060][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-11-29 16:02:01.061][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-11-29 16:02:01.062][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-11-29 16:02:01.064][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-11-29 16:02:01.065][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-11-29 16:02:01.066][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-11-29 16:02:01.068][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-29 16:02:01.069][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-29 16:02:01.071][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-11-29 16:02:01.072][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-11-29 16:02:01.073][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-11-29 16:02:01.075][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-11-29 16:02:01.076][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-11-29 16:02:01.078][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-11-29 16:02:01.079][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-11-29 16:02:01.081][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-11-29 16:02:01.082][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-11-29 16:02:01.083][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-11-29 16:02:01.085][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-11-29 16:02:01.086][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-11-29 16:02:01.088][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-11-29 16:02:01.089][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-11-29 16:02:01.090][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-11-29 16:02:01.097][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-11-29 16:02:01.098][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2025-11-29 16:02:01.102][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-29 16:02:01.102][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:01.103][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:01.104][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:01.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-29 16:02:01.110][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:01.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-29 16:02:01.112][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-29 16:02:01.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:01.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:01.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:01.115][FUN] Functions in observer BiodbConfig: [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[2025-11-29 16:02:01.116][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:01.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-29 16:02:01.118][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-29 16:02:01.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:01.120][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:01.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:01.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-29 16:02:01.123][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:01.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-29 16:02:01.124][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-29 16:02:01.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:01.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:01.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:01.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-29 16:02:01.129][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:01.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-29 16:02:01.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-29 16:02:01.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:01.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:01.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:01.134][FUN] Functions in observer BiodbConfig: [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[2025-11-29 16:02:01.135][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:01.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-29 16:02:01.137][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-29 16:02:01.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:01.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:01.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:01.141][FUN] Functions in observer BiodbConfig: [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[2025-11-29 16:02:01.142][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:01.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-29 16:02:01.143][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-29 16:02:01.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:01.145][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:01.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:01.147][FUN] Functions in observer BiodbConfig: [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[2025-11-29 16:02:01.148][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:01.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-29 16:02:01.150][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-29 16:02:01.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:01.151][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:01.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:01.153][FUN] Functions in observer BiodbConfig: [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[2025-11-29 16:02:01.154][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:01.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-29 16:02:01.156][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-29 16:02:01.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:01.158][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:01.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:01.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-29 16:02:01.160][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:01.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-29 16:02:01.162][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-29 16:02:01.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:01.164][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:01.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:01.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-29 16:02:01.167][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:01.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-29 16:02:01.168][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-29 16:02:01.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:01.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:01.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:01.172][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[2025-11-29 16:02:01.173][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:01.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-29 16:02:01.175][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-29 16:02:01.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:01.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:01.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:01.178][FUN] Functions in observer BiodbConfig: [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[2025-11-29 16:02:01.179][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:01.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-29 16:02:01.181][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-29 16:02:01.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:01.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:01.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:01.184][FUN] Functions in observer BiodbConfig: [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[2025-11-29 16:02:01.185][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:01.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-29 16:02:01.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-29 16:02:01.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:01.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:01.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:01.191][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[2025-11-29 16:02:01.192][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:01.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-29 16:02:01.193][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-29 16:02:01.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:01.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:01.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:01.197][FUN] Functions in observer BiodbConfig: [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[2025-11-29 16:02:01.198][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:01.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-29 16:02:01.200][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-29 16:02:01.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:01.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:01.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:01.203][FUN] Functions in observer BiodbConfig: [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[2025-11-29 16:02:01.204][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-29 16:02:01.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-29 16:02:01.205][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-29 16:02:01.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:01.211][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:01.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:01.213][FUN] Functions in observer BiodbConfig: [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[2025-11-29 16:02:01.214][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/definitions.yml".
biodb.DEBUG[2025-11-29 16:02:01.223][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-11-29 16:02:01.225][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-29 16:02:01.226][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-11-29 16:02:01.227][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-29 16:02:01.228][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-29 16:02:01.229][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-29 16:02:01.230][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-29 16:02:01.230][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-11-29 16:02:01.231][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-11-29 16:02:01.232][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-11-29 16:02:01.233][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-29 16:02:01.234][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-29 16:02:01.235][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-11-29 16:02:01.236][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-29 16:02:01.237][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-11-29 16:02:01.237][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-11-29 16:02:01.237][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-11-29 16:02:01.237][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-11-29 16:02:01.237][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-11-29 16:02:01.237][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-11-29 16:02:01.237][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-11-29 16:02:01.237][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-11-29 16:02:01.237][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-11-29 16:02:01.237][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-11-29 16:02:01.237][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-11-29 16:02:01.238][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-11-29 16:02:01.239][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-29 16:02:01.239][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-29 16:02:01.239][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-29 16:02:01.240][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-11-29 16:02:01.241][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-29 16:02:01.242][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-29 16:02:01.242][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-29 16:02:01.243][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-29 16:02:01.244][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-29 16:02:01.245][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-29 16:02:01.246][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-11-29 16:02:01.246][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-11-29 16:02:01.247][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-29 16:02:01.248][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-29 16:02:01.249][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-11-29 16:02:01.250][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-11-29 16:02:01.250][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-11-29 16:02:01.255][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-29 16:02:01.257][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-29 16:02:01.258][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-11-29 16:02:01.259][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-29 16:02:01.261][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-29 16:02:01.262][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-29 16:02:01.283][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-11-29 16:02:01.298][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-11-29 16:02:01.305][biodb::testThat]
biodb.INFO [2025-11-29 16:02:01.306][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-11-29 16:02:01.307][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-29 16:02:01.308][biodb::testThat]
biodb.TRACE[2025-11-29 16:02:01.311][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-11-29 16:02:01.313][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-29 16:02:01.316][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-29 16:02:01.323][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-29 16:02:01.324][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-29 16:02:01.325][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-29 16:02:01.337][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:01.338][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:01.339][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:01.340][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-29 16:02:01.349][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:01.350][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:01.350][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.351][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.353][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:01.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:01.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.368][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-29 16:02:01.369][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-29 16:02:01.370][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.371][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.396][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-29 16:02:01.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-29 16:02:01.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.400][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-29 16:02:01.401][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-29 16:02:01.401][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.402][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.404][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-29 16:02:01.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-29 16:02:01.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.416][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-29 16:02:01.417][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-29 16:02:01.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.419][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.420][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-29 16:02:01.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-29 16:02:01.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.424][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-29 16:02:01.425][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-29 16:02:01.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.427][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.428][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-29 16:02:01.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-29 16:02:01.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.431][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:01.432][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:01.433][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.434][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.435][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:01.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:01.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.439][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-29 16:02:01.440][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:01.441][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.442][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.443][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-29 16:02:01.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:01.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.447][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:01.448][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:01.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.449][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.451][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:01.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:01.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.454][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-29 16:02:01.455][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-29 16:02:01.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.457][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.458][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-29 16:02:01.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-29 16:02:01.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.462][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-29 16:02:01.463][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-29 16:02:01.464][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.465][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.466][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-29 16:02:01.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-29 16:02:01.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.470][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-29 16:02:01.471][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-29 16:02:01.472][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.473][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.474][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-29 16:02:01.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-29 16:02:01.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.478][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:01.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:01.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.481][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:01.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:01.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.485][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:01.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:01.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.489][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:01.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:01.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.493][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:01.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:01.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.496][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:01.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:01.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:01.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:01.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.534][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:01.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:01.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.538][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:01.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:01.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.542][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:01.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:01.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-29 16:02:01.546][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-11-29 16:02:01.548][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-29 16:02:01.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-29 16:02:01.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.552][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-29 16:02:01.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-29 16:02:01.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.581][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-29 16:02:01.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-29 16:02:01.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.584][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-29 16:02:01.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-29 16:02:01.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.588][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:01.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:01.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.592][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:01.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:01.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.596][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-29 16:02:01.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-29 16:02:01.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.599][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-29 16:02:01.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-29 16:02:01.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.603][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-11-29 16:02:01.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-11-29 16:02:01.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.607][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-11-29 16:02:01.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-11-29 16:02:01.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.612][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:01.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:01.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.627][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:01.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:01.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:01.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:01.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:01.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:01.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.642][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:01.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:01.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.647][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:01.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:01.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.651][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:01.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:01.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:01.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:01.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.658][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:01.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:01.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.662][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:01.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:01.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.666][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:01.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:01.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.675][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:01.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:01.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:01.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:01.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.683][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:01.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:01.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.686][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:01.687][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:01.688][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.689][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:01.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:01.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.701][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:01.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:01.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.704][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:01.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:01.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.708][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:01.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:01.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.746][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:01.747][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:01.748][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.749][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.750][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:01.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:01.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.760][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-29 16:02:01.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-29 16:02:01.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.764][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-29 16:02:01.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-29 16:02:01.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.768][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-29 16:02:01.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-29 16:02:01.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.771][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-29 16:02:01.772][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-29 16:02:01.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.774][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.775][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-29 16:02:01.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-29 16:02:01.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.786][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-29 16:02:01.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-29 16:02:01.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.790][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-29 16:02:01.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-29 16:02:01.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.793][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-29 16:02:01.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-29 16:02:01.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.797][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-29 16:02:01.798][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-29 16:02:01.799][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.800][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.801][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-29 16:02:01.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-29 16:02:01.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.811][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:01.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:01.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.815][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:01.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:01.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.819][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:01.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:01.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.823][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:01.824][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:01.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.825][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.826][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:01.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:01.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.837][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:01.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:01.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.841][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:01.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:01.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.844][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:01.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:01.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.848][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:01.849][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:01.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.851][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.852][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:01.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:01.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.863][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-29 16:02:01.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-29 16:02:01.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.866][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-29 16:02:01.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-29 16:02:01.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.870][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-29 16:02:01.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-29 16:02:01.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.874][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-29 16:02:01.875][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-29 16:02:01.876][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.876][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.877][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-29 16:02:01.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-29 16:02:01.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.888][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-29 16:02:01.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-29 16:02:01.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.891][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-29 16:02:01.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-29 16:02:01.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.895][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-29 16:02:01.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-29 16:02:01.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.902][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-29 16:02:01.903][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-29 16:02:01.904][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.905][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.906][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-29 16:02:01.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-29 16:02:01.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.916][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:01.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:01.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.920][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:01.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:01.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.924][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:01.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:01.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.928][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:01.929][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:01.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.930][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.931][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:01.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:01.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.941][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-29 16:02:01.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-29 16:02:01.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.945][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-29 16:02:01.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-29 16:02:01.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.949][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-29 16:02:01.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-29 16:02:01.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.952][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-29 16:02:01.953][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-29 16:02:01.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.955][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.956][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-29 16:02:01.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-29 16:02:01.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.966][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-29 16:02:01.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-29 16:02:01.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.970][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-29 16:02:01.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-29 16:02:01.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.974][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-29 16:02:01.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-29 16:02:01.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.977][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-29 16:02:01.978][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-29 16:02:01.979][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.980][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.981][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-29 16:02:01.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-29 16:02:01.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.991][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-29 16:02:01.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-29 16:02:01.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.995][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-29 16:02:01.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-29 16:02:01.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:01.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:01.999][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-29 16:02:02.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-29 16:02:02.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.002][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-29 16:02:02.003][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-29 16:02:02.004][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.005][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.006][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-29 16:02:02.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-29 16:02:02.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.016][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:02.017][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:02.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.019][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.023][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-29 16:02:02.024][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-29 16:02:02.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.025][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.029][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-29 16:02:02.030][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-29 16:02:02.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.032][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.036][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-29 16:02:02.037][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-29 16:02:02.038][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.039][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.042][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-29 16:02:02.043][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-29 16:02:02.044][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.045][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.049][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:02.054][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:02.055][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.055][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.059][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:02.060][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:02.061][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.062][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.066][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:02.067][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:02.067][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.068][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.072][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-29 16:02:02.073][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-29 16:02:02.074][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.075][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.079][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-29 16:02:02.079][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-29 16:02:02.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.081][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.085][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-29 16:02:02.086][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-29 16:02:02.087][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.088][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.103][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-2528-content.xml".
biodb.DEBUG[2025-11-29 16:02:02.136][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-29 16:02:02.137][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-29 16:02:02.139][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-29 16:02:02.140][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-29 16:02:02.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-29 16:02:02.145][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:02.146][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:02.147][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:02.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-29 16:02:02.149][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:02.150][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:02.151][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.152][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:02.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:02.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.172][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-29 16:02:02.173][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-29 16:02:02.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.175][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.176][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-29 16:02:02.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-29 16:02:02.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.180][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-29 16:02:02.181][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-29 16:02:02.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.183][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.184][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-29 16:02:02.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-29 16:02:02.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.192][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-29 16:02:02.193][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-29 16:02:02.194][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.195][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.196][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-29 16:02:02.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-29 16:02:02.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.199][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-29 16:02:02.200][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-29 16:02:02.201][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.202][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.203][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-29 16:02:02.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-29 16:02:02.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.207][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:02.208][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:02.209][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.209][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.211][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:02.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:02.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.214][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-29 16:02:02.215][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:02.216][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.217][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.218][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-29 16:02:02.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:02.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.222][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:02.223][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:02.224][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.225][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.226][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:02.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:02.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.229][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-29 16:02:02.230][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-29 16:02:02.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.232][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.233][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-29 16:02:02.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-29 16:02:02.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.237][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-29 16:02:02.238][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-29 16:02:02.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.240][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.241][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-29 16:02:02.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-29 16:02:02.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.245][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-29 16:02:02.246][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-29 16:02:02.246][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.247][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.248][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-29 16:02:02.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-29 16:02:02.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.252][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:02.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:02.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.256][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:02.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:02.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:02.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:02.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.263][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:02.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:02.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.267][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:02.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:02.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.271][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:02.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:02.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.274][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:02.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:02.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.278][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:02.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:02.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.282][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:02.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:02.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:02.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:02.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-29 16:02:02.289][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 2528.
biodb.TRACE[2025-11-29 16:02:02.308][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-29 16:02:02.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-29 16:02:02.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.312][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-29 16:02:02.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-29 16:02:02.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.316][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-29 16:02:02.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-29 16:02:02.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.319][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-29 16:02:02.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-29 16:02:02.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.323][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:02.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:02.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.326][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:02.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:02.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.330][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-29 16:02:02.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-29 16:02:02.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.334][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-29 16:02:02.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-29 16:02:02.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.337][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-11-29 16:02:02.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-11-29 16:02:02.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.345][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-11-29 16:02:02.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-11-29 16:02:02.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:02.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:02.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.356][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:02.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:02.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:02.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:02.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.367][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:02.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:02.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.370][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:02.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:02.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.375][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:02.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:02.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.379][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:02.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:02.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.383][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:02.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:02.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.387][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:02.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:02.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.390][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:02.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:02.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.394][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:02.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:02.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.413][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:02.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:02.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.416][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:02.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:02.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.420][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:02.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:02.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.424][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:02.425][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:02.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.426][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.427][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:02.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:02.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.438][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:02.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:02.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.441][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:02.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:02.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.445][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:02.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:02.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.449][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:02.450][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:02.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.452][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.452][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:02.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:02.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.463][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-29 16:02:02.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-29 16:02:02.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.466][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-29 16:02:02.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-29 16:02:02.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.470][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-29 16:02:02.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-29 16:02:02.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.474][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-29 16:02:02.475][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-29 16:02:02.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.476][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.477][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-29 16:02:02.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-29 16:02:02.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.488][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-29 16:02:02.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-29 16:02:02.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.495][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-29 16:02:02.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-29 16:02:02.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.499][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-29 16:02:02.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-29 16:02:02.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.502][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-29 16:02:02.503][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-29 16:02:02.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.505][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.506][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-29 16:02:02.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-29 16:02:02.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.516][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-29 16:02:02.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:02.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.520][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:02.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:02.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.523][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:02.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:02.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.527][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-29 16:02:02.528][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:02.529][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.530][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.531][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-29 16:02:02.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:02.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.541][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:02.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:02.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.544][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:02.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:02.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.548][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:02.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:02.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.552][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:02.553][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:02.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.555][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.556][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:02.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:02.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.566][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:02.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:02.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.569][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:02.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:02.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.573][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:02.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:02.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.577][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:02.578][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:02.579][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.580][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.581][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:02.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:02.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.591][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-29 16:02:02.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-29 16:02:02.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.594][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-29 16:02:02.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-29 16:02:02.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.598][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-29 16:02:02.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-29 16:02:02.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.602][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-29 16:02:02.603][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-29 16:02:02.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.604][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.605][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-29 16:02:02.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-29 16:02:02.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.615][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-29 16:02:02.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-29 16:02:02.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.619][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-29 16:02:02.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-29 16:02:02.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.623][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-29 16:02:02.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-29 16:02:02.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.626][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-29 16:02:02.627][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-29 16:02:02.628][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.629][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.630][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-29 16:02:02.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-29 16:02:02.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.644][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:02.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:02.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.648][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:02.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:02.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.651][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:02.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:02.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.655][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:02.656][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:02.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.658][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.659][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:02.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:02.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.669][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-29 16:02:02.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-29 16:02:02.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.673][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-29 16:02:02.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-29 16:02:02.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.676][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-29 16:02:02.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-29 16:02:02.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.680][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-29 16:02:02.681][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-29 16:02:02.682][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.683][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.684][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-29 16:02:02.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-29 16:02:02.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.694][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-29 16:02:02.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-29 16:02:02.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.698][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-29 16:02:02.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-29 16:02:02.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.702][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-29 16:02:02.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-29 16:02:02.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.705][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-29 16:02:02.706][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-29 16:02:02.707][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.708][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.709][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-29 16:02:02.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-29 16:02:02.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.719][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-29 16:02:02.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-29 16:02:02.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.723][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-29 16:02:02.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-29 16:02:02.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.727][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-29 16:02:02.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-29 16:02:02.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.731][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-29 16:02:02.731][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-29 16:02:02.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.733][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.734][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-29 16:02:02.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-29 16:02:02.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.744][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:02.745][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:02.746][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.747][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.751][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-29 16:02:02.752][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-29 16:02:02.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.754][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.757][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-29 16:02:02.758][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-29 16:02:02.759][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.760][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.764][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-29 16:02:02.765][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-29 16:02:02.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.767][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.770][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-29 16:02:02.771][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-29 16:02:02.772][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.773][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.777][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:02.778][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:02.779][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.780][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.784][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:02.785][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:02.786][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.786][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.790][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:02.791][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:02.796][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.797][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.800][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-29 16:02:02.801][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-29 16:02:02.802][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.803][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.807][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-29 16:02:02.808][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-29 16:02:02.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.810][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.813][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-29 16:02:02.814][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-29 16:02:02.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.816][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.820][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-7799-content.xml".
biodb.DEBUG[2025-11-29 16:02:02.821][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-29 16:02:02.822][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-29 16:02:02.824][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-29 16:02:02.824][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-29 16:02:02.825][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-29 16:02:02.829][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:02.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:02.831][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:02.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-29 16:02:02.834][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:02.835][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:02.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.836][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:02.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:02.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.841][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-29 16:02:02.842][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-29 16:02:02.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.844][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.845][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-29 16:02:02.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-29 16:02:02.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.849][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-29 16:02:02.850][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-29 16:02:02.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.852][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.853][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-29 16:02:02.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-29 16:02:02.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.856][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-29 16:02:02.857][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-29 16:02:02.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.859][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.860][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-29 16:02:02.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-29 16:02:02.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.864][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-29 16:02:02.865][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-29 16:02:02.866][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.867][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.868][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-29 16:02:02.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-29 16:02:02.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.872][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:02.873][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:02.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.874][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.876][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:02.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:02.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.879][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-29 16:02:02.880][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:02.881][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.882][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.883][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-29 16:02:02.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:02.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.887][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:02.888][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:02.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.890][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.891][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:02.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:02.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.895][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-29 16:02:02.896][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-29 16:02:02.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.897][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.899][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-29 16:02:02.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-29 16:02:02.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.902][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-29 16:02:02.903][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-29 16:02:02.904][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.905][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.906][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-29 16:02:02.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-29 16:02:02.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.910][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-29 16:02:02.911][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-29 16:02:02.912][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.913][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.914][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-29 16:02:02.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-29 16:02:02.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.917][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:02.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:02.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.921][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:02.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:02.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.925][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:02.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:02.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.928][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:02.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:02.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.932][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:02.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:02.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.936][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:02.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:02.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.939][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:02.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:02.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.943][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:02.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:02.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.951][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:02.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:02.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:02.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:02.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-29 16:02:02.958][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 7799.
biodb.TRACE[2025-11-29 16:02:02.960][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-29 16:02:02.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-29 16:02:02.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.964][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-29 16:02:02.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-29 16:02:02.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.967][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-29 16:02:02.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-29 16:02:02.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.971][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-29 16:02:02.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-29 16:02:02.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.975][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:02.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:02.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.978][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:02.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:02.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.982][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-29 16:02:02.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-29 16:02:02.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.986][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-29 16:02:02.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-29 16:02:02.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.989][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-11-29 16:02:02.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-11-29 16:02:02.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.993][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-11-29 16:02:02.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-11-29 16:02:02.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:02.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:02.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:02.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:02.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.005][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:03.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:03.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.012][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:03.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:03.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.015][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:03.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:03.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:03.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:03.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.024][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:03.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:03.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:03.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:03.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.031][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:03.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:03.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.035][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:03.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:03.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.039][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:03.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:03.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.043][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:03.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:03.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.051][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:03.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:03.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:03.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:03.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.059][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:03.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:03.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.062][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:03.063][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:03.064][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.065][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:03.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:03.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.076][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-29 16:02:03.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-29 16:02:03.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.080][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-29 16:02:03.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-29 16:02:03.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.084][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-29 16:02:03.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-29 16:02:03.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.088][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-29 16:02:03.089][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-29 16:02:03.089][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.090][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.091][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-29 16:02:03.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-29 16:02:03.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.106][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-29 16:02:03.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-29 16:02:03.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.109][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-29 16:02:03.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-29 16:02:03.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.113][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-29 16:02:03.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-29 16:02:03.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.116][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-29 16:02:03.117][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-29 16:02:03.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.119][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.120][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-29 16:02:03.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-29 16:02:03.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.130][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-29 16:02:03.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-29 16:02:03.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.134][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-29 16:02:03.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-29 16:02:03.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.138][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-29 16:02:03.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-29 16:02:03.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.141][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-29 16:02:03.142][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-29 16:02:03.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.144][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.145][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-29 16:02:03.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-29 16:02:03.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.155][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:03.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:03.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.159][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:03.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:03.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.163][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:03.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:03.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.166][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:03.167][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:03.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.169][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.170][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:03.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:03.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.181][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:03.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:03.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.184][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:03.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:03.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.188][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:03.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:03.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.192][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:03.193][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:03.194][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.195][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.195][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:03.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:03.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.206][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:03.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:03.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.209][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:03.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:03.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.213][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:03.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:03.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.217][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:03.218][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:03.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.220][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.221][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:03.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:03.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.231][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-29 16:02:03.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-29 16:02:03.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.235][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-29 16:02:03.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-29 16:02:03.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.238][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-29 16:02:03.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-29 16:02:03.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.242][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-29 16:02:03.243][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-29 16:02:03.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.245][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.246][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-29 16:02:03.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-29 16:02:03.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.260][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-29 16:02:03.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-29 16:02:03.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.264][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-29 16:02:03.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-29 16:02:03.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.267][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-29 16:02:03.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-29 16:02:03.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.271][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-29 16:02:03.272][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-29 16:02:03.273][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.274][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.274][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-29 16:02:03.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-29 16:02:03.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.285][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-29 16:02:03.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-29 16:02:03.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.288][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-29 16:02:03.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-29 16:02:03.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.292][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-29 16:02:03.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-29 16:02:03.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.296][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-29 16:02:03.297][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-29 16:02:03.298][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.299][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.300][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-29 16:02:03.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-29 16:02:03.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.310][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-29 16:02:03.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-29 16:02:03.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.314][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-29 16:02:03.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-29 16:02:03.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.318][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-29 16:02:03.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-29 16:02:03.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.321][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-29 16:02:03.322][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-29 16:02:03.323][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.324][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.325][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-29 16:02:03.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-29 16:02:03.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.336][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:03.337][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:03.338][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.339][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.343][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-29 16:02:03.344][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-29 16:02:03.344][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.345][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.349][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-29 16:02:03.350][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-29 16:02:03.351][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.352][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.356][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-29 16:02:03.357][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-29 16:02:03.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.359][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.363][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-29 16:02:03.364][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-29 16:02:03.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.366][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.369][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:03.370][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-29 16:02:03.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.372][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.376][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:03.377][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-29 16:02:03.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.379][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.383][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:03.384][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:03.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.386][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.389][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-29 16:02:03.390][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-29 16:02:03.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.392][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.396][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-29 16:02:03.397][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-29 16:02:03.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.399][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:03.403][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-29 16:02:03.404][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-29 16:02:03.405][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:03.410][ef$get] fields variable is a list.
biodb.INFO [2025-11-29 16:02:03.416][biodb::testThat]
biodb.INFO [2025-11-29 16:02:03.417][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-11-29 16:02:03.418][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-29 16:02:03.419][biodb::testThat]
biodb.DEBUG[2025-11-29 16:02:03.421][private$loadEntries] Creating entries from ids [3]: "15440, 2528, 7799".
biodb.DEBUG[2025-11-29 16:02:03.422][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-11-29 16:02:03.425][cch$loadContents] Load 3 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2025-11-29 16:02:03.427][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-29 16:02:03.428][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-11-29 16:02:03.429][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-11-29 16:02:03.430][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-11-29 16:02:03.435][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-29 16:02:03.436][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-29 16:02:03.437][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-29 16:02:03.441][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:03.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:03.442][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:03.443][FUN] Functions in observer 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[2025-11-29 16:02:03.445][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
fscache.INFO [2025-11-29 16:02:03.464][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2025-11-29 16:02:03.465][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-29 16:02:03.466][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-29 16:02:03.467][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-11-29 16:02:04.611][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[2025-11-29 16:02:04.613][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-29 16:02:04.615][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[2025-11-29 16:02:04.617][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 [2025-11-29 16:02:05.185][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-11-29 16:02:05.188][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-29 16:02:05.190][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-29 16:02:05.193][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-11-29 16:02:05.979][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[2025-11-29 16:02:05.980][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-29 16:02:05.982][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[2025-11-29 16:02:05.984][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 [2025-11-29 16:02:06.545][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-11-29 16:02:06.547][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-29 16:02:06.549][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-29 16:02:06.552][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-11-29 16:02:06.988][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[2025-11-29 16:02:06.990][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-29 16:02:06.992][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[2025-11-29 16:02:06.994][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 [2025-11-29 16:02:07.554][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-11-29 16:02:07.557][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-29 16:02:07.559][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-29 16:02:07.562][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-11-29 16:02:08.000][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[2025-11-29 16:02:08.002][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-29 16:02:08.004][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[2025-11-29 16:02:08.006][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 [2025-11-29 16:02:08.566][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-11-29 16:02:08.568][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-29 16:02:08.571][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-29 16:02:08.574][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-11-29 16:02:09.040][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[2025-11-29 16:02:09.042][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-29 16:02:09.044][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[2025-11-29 16:02:09.046][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 [2025-11-29 16:02:09.634][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-11-29 16:02:09.636][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-29 16:02:09.638][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-29 16:02:09.641][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-11-29 16:02:10.078][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[2025-11-29 16:02:10.079][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-29 16:02:10.081][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[2025-11-29 16:02:10.083][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 [2025-11-29 16:02:10.642][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-11-29 16:02:10.645][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-29 16:02:10.647][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-29 16:02:10.650][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-11-29 16:02:11.087][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[2025-11-29 16:02:11.088][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-29 16:02:11.090][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[2025-11-29 16:02:11.092][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2025-11-29 16:02:11.659][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-11-29 16:02:11.663][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-29 16:02:11.666][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-29 16:02:11.670][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-11-29 16:02:12.454][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[2025-11-29 16:02:12.456][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-29 16:02:12.458][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[2025-11-29 16:02:12.460][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 [2025-11-29 16:02:13.019][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-11-29 16:02:13.021][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-29 16:02:13.024][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-29 16:02:13.027][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-11-29 16:02:13.466][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[2025-11-29 16:02:13.468][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-29 16:02:13.470][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[2025-11-29 16:02:13.471][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 [2025-11-29 16:02:14.033][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-11-29 16:02:14.036][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-29 16:02:14.038][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-29 16:02:14.042][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-11-29 16:02:14.481][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[2025-11-29 16:02:14.483][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-29 16:02:14.486][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[2025-11-29 16:02:14.488][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 [2025-11-29 16:02:15.048][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
biodb.DEBUG[2025-11-29 16:02:15.053][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-29 16:02:15.055][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-29 16:02:15.058][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-29 16:02:15.072][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:15.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:15.077][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:15.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-29 16:02:15.131][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
fscache.INFO [2025-11-29 16:02:15.163][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2025-11-29 16:02:15.179][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-29 16:02:15.180][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-29 16:02:15.181][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-11-29 16:02:15.581][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-11-29 16:02:15.583][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-29 16:02:15.584][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-29 16:02:15.586][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-11-29 16:02:16.143][private$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[2025-11-29 16:02:16.146][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-29 16:02:16.148][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-29 16:02:16.151][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-11-29 16:02:16.589][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-11-29 16:02:16.591][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-29 16:02:16.593][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-29 16:02:16.595][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-11-29 16:02:17.111][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2025-11-29 16:02:17.112][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-29 16:02:17.113][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-29 16:02:17.115][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-11-29 16:02:17.517][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-11-29 16:02:17.518][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-29 16:02:17.520][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-29 16:02:17.521][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-11-29 16:02:18.036][private$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[2025-11-29 16:02:18.037][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-29 16:02:18.038][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-29 16:02:18.039][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-11-29 16:02:18.439][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-11-29 16:02:18.440][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-29 16:02:18.442][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-29 16:02:18.443][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-11-29 16:02:18.961][private$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[2025-11-29 16:02:18.962][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-29 16:02:18.963][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-29 16:02:18.964][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-11-29 16:02:19.364][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-11-29 16:02:19.365][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-29 16:02:19.366][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-29 16:02:19.368][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-11-29 16:02:19.883][private$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[2025-11-29 16:02:19.884][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-29 16:02:19.885][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-29 16:02:19.886][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-11-29 16:02:20.286][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-11-29 16:02:20.288][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-29 16:02:20.289][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-29 16:02:20.290][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-11-29 16:02:20.837][private$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[2025-11-29 16:02:20.838][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-29 16:02:20.839][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-29 16:02:20.841][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-11-29 16:02:21.251][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-11-29 16:02:21.253][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-29 16:02:21.254][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-29 16:02:21.255][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-11-29 16:02:21.772][private$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[2025-11-29 16:02:21.773][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-29 16:02:21.774][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-29 16:02:21.775][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-11-29 16:02:22.174][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-11-29 16:02:22.175][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-29 16:02:22.176][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-29 16:02:22.177][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-11-29 16:02:22.692][private$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[2025-11-29 16:02:22.693][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-29 16:02:22.694][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-29 16:02:22.695][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-11-29 16:02:23.095][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-11-29 16:02:23.096][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-29 16:02:23.101][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-29 16:02:23.103][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-11-29 16:02:23.622][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2025-11-29 16:02:23.623][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-29 16:02:23.624][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-29 16:02:23.626][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-11-29 16:02:24.028][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-11-29 16:02:24.029][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-29 16:02:24.030][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-11-29 16:02:24.031][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-11-29 16:02:24.546][private$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[2025-11-29 16:02:24.548][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-29 16:02:24.549][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-29 16:02:24.550][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-29 16:02:24.554][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:24.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:24.556][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:24.557][FUN] Functions in observer 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[2025-11-29 16:02:24.558][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
fscache.INFO [2025-11-29 16:02:24.560][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2025-11-29 16:02:24.561][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-29 16:02:24.562][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-29 16:02:24.563][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-11-29 16:02:24.965][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[2025-11-29 16:02:24.966][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-29 16:02:24.967][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[2025-11-29 16:02:24.969][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 [2025-11-29 16:02:25.484][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-11-29 16:02:25.485][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-29 16:02:25.486][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-29 16:02:25.488][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-11-29 16:02:25.889][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[2025-11-29 16:02:25.890][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-29 16:02:25.891][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[2025-11-29 16:02:25.892][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 [2025-11-29 16:02:26.414][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-11-29 16:02:26.416][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-29 16:02:26.418][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-29 16:02:26.421][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-11-29 16:02:26.860][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[2025-11-29 16:02:26.861][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-29 16:02:26.863][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[2025-11-29 16:02:26.865][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 [2025-11-29 16:02:27.426][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-11-29 16:02:27.429][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-29 16:02:27.431][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-29 16:02:27.434][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-11-29 16:02:27.871][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[2025-11-29 16:02:27.872][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-29 16:02:27.874][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[2025-11-29 16:02:27.876][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 [2025-11-29 16:02:28.465][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-11-29 16:02:28.468][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-29 16:02:28.470][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-29 16:02:28.473][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-11-29 16:02:28.915][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[2025-11-29 16:02:28.916][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-29 16:02:28.918][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[2025-11-29 16:02:28.920][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 [2025-11-29 16:02:29.481][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-11-29 16:02:29.483][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-29 16:02:29.485][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-29 16:02:29.488][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-11-29 16:02:29.924][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[2025-11-29 16:02:29.926][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-29 16:02:29.928][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[2025-11-29 16:02:29.929][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 [2025-11-29 16:02:30.489][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-11-29 16:02:30.492][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-29 16:02:30.494][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-29 16:02:30.497][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-11-29 16:02:30.938][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[2025-11-29 16:02:30.939][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-29 16:02:30.941][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[2025-11-29 16:02:30.943][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 [2025-11-29 16:02:31.500][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-11-29 16:02:31.501][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-29 16:02:31.502][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-29 16:02:31.503][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-11-29 16:02:31.942][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[2025-11-29 16:02:31.944][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-29 16:02:31.945][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[2025-11-29 16:02:31.946][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 [2025-11-29 16:02:32.464][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-11-29 16:02:32.466][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-29 16:02:32.467][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-29 16:02:32.468][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-11-29 16:02:32.871][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[2025-11-29 16:02:32.872][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-29 16:02:32.873][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[2025-11-29 16:02:32.874][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 [2025-11-29 16:02:33.387][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-11-29 16:02:33.389][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-11-29 16:02:33.390][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-11-29 16:02:33.391][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-11-29 16:02:33.789][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[2025-11-29 16:02:33.791][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-11-29 16:02:33.792][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[2025-11-29 16:02:33.793][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 [2025-11-29 16:02:34.308][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
fscache.INFO [2025-11-29 16:02:34.311][cch$saveContents] Save 3 contents to /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2025-11-29 16:02:34.312][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-11-29 16:02:34.314][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-11-29 16:02:34.315][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-11-29 16:02:34.317][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-29 16:02:34.318][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-29 16:02:34.319][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-29 16:02:34.325][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:34.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:34.327][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:34.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-29 16:02:34.330][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:34.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:34.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:34.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:34.335][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:34.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:34.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:34.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:34.339][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:34.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:34.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:34.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-29 16:02:34.343][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-29 16:02:34.344][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-29 16:02:34.345][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-29 16:02:34.350][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:34.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:34.352][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:34.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-29 16:02:34.355][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:34.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:34.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:34.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:34.359][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:34.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:34.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:34.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:34.376][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:34.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:34.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:34.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-29 16:02:34.380][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-29 16:02:34.381][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-29 16:02:34.382][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-29 16:02:34.386][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:34.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:34.388][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:34.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-29 16:02:34.390][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:34.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:34.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:34.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:34.394][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-29 16:02:34.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-29 16:02:34.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:34.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:34.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:34.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:34.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:34.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:34.403][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:34.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:34.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:34.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:34.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:34.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:34.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:34.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:34.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:34.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:34.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:34.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:34.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:34.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:34.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:34.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:34.419][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:34.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:34.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:34.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:34.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:34.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:34.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:34.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:34.427][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:34.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:34.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:34.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:34.431][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:34.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:34.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:34.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:34.435][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:34.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:34.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:34.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:34.439][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:34.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:34.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:34.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:34.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:34.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:34.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:34.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:34.447][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:34.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:34.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:34.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:34.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:34.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:34.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:34.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:34.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:34.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:34.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:34.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:34.459][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-29 16:02:34.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-29 16:02:34.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:34.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-29 16:02:34.463][self$createEntryFromContent] Accession numbers: NA, NA, NA.
biodb.DEBUG[2025-11-29 16:02:34.464][self$createEntryFromContent] Found 3 entry/ies without an accession number. Set it/them to NULL.
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2025-11-29 16:02:34.589][biodb::testThat]
biodb.INFO [2025-11-29 16:02:34.590][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-11-29 16:02:34.591][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-29 16:02:34.592][biodb::testThat]
biodb.TRACE[2025-11-29 16:02:34.595][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-29 16:02:34.596][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-29 16:02:34.597][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:34.598][ef$get] fields variable is a list.
biodb.DEBUG[2025-11-29 16:02:34.599][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2025-11-29 16:02:34.819][biodb::testThat]
biodb.INFO [2025-11-29 16:02:34.820][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-11-29 16:02:34.821][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-29 16:02:34.822][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2025-11-29 16:02:34.915][biodb::testThat]
biodb.INFO [2025-11-29 16:02:34.916][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-11-29 16:02:34.917][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-29 16:02:34.918][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2025-11-29 16:02:35.011][biodb::testThat]
biodb.INFO [2025-11-29 16:02:35.012][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-11-29 16:02:35.013][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-29 16:02:35.014][biodb::testThat]
biodb.INFO [2025-11-29 16:02:35.022][biodb::testThat]
biodb.INFO [2025-11-29 16:02:35.023][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-11-29 16:02:35.024][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-29 16:02:35.025][biodb::testThat]
biodb.INFO [2025-11-29 16:02:35.035][biodb::testThat]
biodb.INFO [2025-11-29 16:02:35.036][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-11-29 16:02:35.037][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-29 16:02:35.038][biodb::testThat]
biodb.DEBUG[2025-11-29 16:02:35.041][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-11-29 16:02:35.662][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-11-29 16:02:36.075][biodb::testThat]
biodb.INFO [2025-11-29 16:02:36.076][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-11-29 16:02:36.078][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-29 16:02:36.079][biodb::testThat]
biodb.TRACE[2025-11-29 16:02:36.097][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-29 16:02:36.098][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-29 16:02:36.099][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:36.100][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:36.101][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:36.102][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:36.103][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:36.104][ef$get] fields variable is a list.
biodb.INFO [2025-11-29 16:02:36.106][biodb::testThat]
biodb.INFO [2025-11-29 16:02:36.107][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-11-29 16:02:36.108][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-29 16:02:36.109][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2025-11-29 16:02:36.226][biodb::testThat]
biodb.INFO [2025-11-29 16:02:36.227][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-11-29 16:02:36.228][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-29 16:02:36.228][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2025-11-29 16:02:36.273][biodb::testThat]
biodb.INFO [2025-11-29 16:02:36.274][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-11-29 16:02:36.275][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-29 16:02:36.276][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2025-11-29 16:02:36.318][biodb::testThat]
biodb.INFO [2025-11-29 16:02:36.319][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-11-29 16:02:36.320][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-29 16:02:36.320][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.TRACE[2025-11-29 16:02:36.366][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-29 16:02:36.367][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-29 16:02:36.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:36.369][ef$get] fields variable is a list.
biodb.TRACE[2025-11-29 16:02:36.370][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:36.371][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-29 16:02:36.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-29 16:02:36.372][ef$get] fields variable is a list.
biodb.INFO [2025-11-29 16:02:36.374][biodb::testThat]
biodb.INFO [2025-11-29 16:02:36.375][biodb::testThat] Running test function  test.annotateMzValues_real_values  (" annotateMzValues() works correctly with real values. ").
biodb.INFO [2025-11-29 16:02:36.376][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-29 16:02:36.377][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2025-11-29 16:02:36.418][biodb::testThat]
biodb.INFO [2025-11-29 16:02:36.419][biodb::testThat] Running test function  test_annotateMzValues_additional_fields  (" Additional fields are accepted in annotateMzValues() ").
biodb.INFO [2025-11-29 16:02:36.420][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-29 16:02:36.421][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2025-11-29 16:02:36.466][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-11-29 16:02:36.467][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-11-29 16:02:36.468][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-11-29 16:02:36.469][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-29 16:02:36.470][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-29 16:02:36.471][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-29 16:02:36.471][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-29 16:02:36.472][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-11-29 16:02:36.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 14 | WARN 0 | SKIP 1 | PASS 220 ]

══ Skipped tests (1) ═══════════════════════════════════════════════════════════
• empty test (1):

══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test_long_100_generic.R:17:1'): RT unit is defined when there is an RT value. ──
Error in `eval_bare(expr, quo_get_env(quo))`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─testthat::expect_true(...)
 4.     └─testthat::quasi_label(enquo(object), label)
 5.       └─rlang::eval_bare(expr, quo_get_env(quo))
── Failure ('test_long_100_generic.R:17:1'): We can search for an entry by searchable field ──
Expected `!is.null(entry)` to be TRUE.
Differences:
`actual`:   FALSE
`expected`: TRUE 

Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─testthat::expect_true(!is.null(entry))
── Error ('test_long_100_generic.R:17:1'): We can search for an entry by searchable field ──
Error in `entry$getFieldValue(f)`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
── Failure ('test_long_100_generic.R:17:1'): We can search for an entry by name. ──
Expected `!is.null(entry)` to be TRUE.
Differences:
`actual`:   FALSE
`expected`: TRUE 

Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─testthat::expect_true(!is.null(entry))
── Error ('test_long_100_generic.R:17:1'): We can search for an entry by name. ──
Error in `entry$getFieldValue("name")`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
── Failure ('test_long_100_generic.R:17:1'): We can load an entry from the database. ──
Expected `any(vapply(entries, is.null, FUN.VALUE = TRUE))` to be FALSE.
Differences:
`actual`:   TRUE 
`expected`: FALSE

Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─opt$refEntries$getRealEntry(id)
 4.     └─self$getRealEntries(ids = id)
 5.       └─testthat::expect_false(any(vapply(entries, is.null, FUN.VALUE = TRUE)))
── Failure ('test_long_100_generic.R:17:1'): We can load an entry from the database. ──
Expected `e` to inherit from "character".
Actual inheritance: "NULL"
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─testthat::expect_is(e, "BiodbEntry")
── Failure ('test_long_100_generic.R:17:1'): We can search for a compound ──────
Expected `!is.null(entry)` to be TRUE.
Differences:
`actual`:   FALSE
`expected`: TRUE 

Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(db = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─testthat::expect_true(!is.null(entry))
── Error ('test_long_100_generic.R:17:1'): We can search for a compound ────────
Error in `entry$getFieldValue("name")`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(db = `<ChebiCnn>`, opt = `<named list>`)
── Error ('test_long_100_generic.R:17:1'): annotateMzValues() accepts a single vector. ──
Error in `e$hasField(mf)`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─base::vapply(entries, function(e) e$hasField(mf), FUN.VALUE = TRUE)
 4.     └─biodb (local) FUN(X[[i]], ...)
── Error ('test_long_100_generic.R:17:1'): ppm tolerance works in annotateMzValues() ──
Error in `e$hasField(mf)`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─base::vapply(entries, function(e) e$hasField(mf), FUN.VALUE = TRUE)
 4.     └─biodb (local) FUN(X[[i]], ...)
── Error ('test_long_100_generic.R:17:1'): Input data frame is not modified by annotateMzValues() ──
Error in `e$hasField(mf)`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─base::vapply(entries, function(e) e$hasField(mf), FUN.VALUE = TRUE)
 4.     └─biodb (local) FUN(X[[i]], ...)
── Error ('test_long_100_generic.R:17:1'): annotateMzValues() works correctly with real values. ──
Error in `e$hasField(mf)`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─base::vapply(entries, function(e) e$hasField(mf), FUN.VALUE = TRUE)
 4.     └─biodb (local) FUN(X[[i]], ...)
── Error ('test_long_100_generic.R:17:1'): Additional fields are accepted in annotateMzValues() ──
Error in `e$hasField(mf)`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─base::vapply(entries, function(e) e$hasField(mf), FUN.VALUE = TRUE)
 4.     └─biodb (local) FUN(X[[i]], ...)

[ FAIL 14 | WARN 0 | SKIP 1 | PASS 220 ]
Error:
! Test failures.
Execution halted

'R CMD check' output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbChebi_1.16.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck’
* using R version 4.5.2 (2025-10-31)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
    GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.3 LTS
* using session charset: UTF-8
* using options ‘--no-codoc --no-examples --no-manual --ignore-vignettes --no-stop-on-test-error’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.16.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... SKIPPED
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... SKIPPED
* checking examples ... SKIPPED
* checking for unstated dependencies in ‘longtests’ ... OK
* checking tests in ‘longtests’ ...
  Running ‘testthat.R’
 ERROR
Running the tests in ‘longtests/testthat.R’ failed.
Last 13 lines of output:
   3.   └─base::vapply(entries, function(e) e$hasField(mf), FUN.VALUE = TRUE)
   4.     └─biodb (local) FUN(X[[i]], ...)
  ── Error ('test_long_100_generic.R:17:1'): Additional fields are accepted in annotateMzValues() ──
  Error in `e$hasField(mf)`: attempt to apply non-function
  Backtrace:
      ▆
   1. ├─base::do.call(fct, params)
   2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
   3.   └─base::vapply(entries, function(e) e$hasField(mf), FUN.VALUE = TRUE)
   4.     └─biodb (local) FUN(X[[i]], ...)
  
  [ FAIL 14 | WARN 0 | SKIP 1 | PASS 220 ]
  Error:
  ! Test failures.
  Execution halted
* DONE

Status: 1 ERROR
See
  ‘/home/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/00check.log’
for details.

Installation output

biodbChebi.Rcheck/00install.out

* installing *source* package ‘biodbChebi’ ...
** this is package ‘biodbChebi’ version ‘1.16.0’
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbChebi)