Back to Long Tests report for BioC 3.22

This page was generated on 2026-03-14 23:55 -0400 (Sat, 14 Mar 2026).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.2 (2025-10-31) -- "[Not] Part in a Rumble" 4892
merida1macOS 12.7.6 Montereyx86_644.5.2 (2025-10-31) -- "[Not] Part in a Rumble" 4686
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 5/31HostnameOS / ArchCHECK
biodbChebi 1.16.0  (landing page)
Pierrick Roger
Snapshot Date: 2026-03-14 09:55 -0400 (Sat, 14 Mar 2026)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: RELEASE_3_22
git_last_commit: 28c1b2d
git_last_commit_date: 2025-10-29 11:12:25 -0400 (Wed, 29 Oct 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  ERROR  
merida1macOS 12.7.6 Monterey / x86_64  ERROR  

CHECK results for biodbChebi on nebbiolo2

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

raw results


Summary

Package: biodbChebi
Version: 1.16.0
Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbChebi_1.16.0.tar.gz
StartedAt: 2026-03-14 16:01:08 -0400 (Sat, 14 Mar 2026)
EndedAt: 2026-03-14 16:02:16 -0400 (Sat, 14 Mar 2026)
EllapsedTime: 68.0 seconds
RetCode: 1
Status:   ERROR  
CheckDir: biodbChebi.Rcheck
Warnings: NA

Tests output

biodbChebi.Rcheck/tests/testthat.Rout.fail


R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
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Platform: x86_64-pc-linux-gnu

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> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2026-03-14 16:01:44.353][biodb::testContext]
biodb.INFO [2026-03-14 16:01:44.355][biodb::testContext] ********************************************************************************
biodb.INFO [2026-03-14 16:01:44.356][biodb::testContext] Test context - Generic long tests
biodb.INFO [2026-03-14 16:01:44.357][biodb::testContext] ********************************************************************************
biodb.INFO [2026-03-14 16:01:44.358][biodb::testContext]
biodb.INFO [2026-03-14 16:01:44.364][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2026-03-14 16:01:44.366][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2026-03-14 16:01:44.373][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-03-14 16:01:44.374][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2026-03-14 16:01:44.375][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2026-03-14 16:01:44.375][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.378][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2026-03-14 16:01:44.395][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2026-03-14 16:01:44.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.397][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.398][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2026-03-14 16:01:44.399][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2026-03-14 16:01:44.400][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.403][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2026-03-14 16:01:44.404][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2026-03-14 16:01:44.405][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2026-03-14 16:01:44.406][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.407][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.408][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2026-03-14 16:01:44.409][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2026-03-14 16:01:44.410][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2026-03-14 16:01:44.411][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.414][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2026-03-14 16:01:44.415][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2026-03-14 16:01:44.415][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.426][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2026-03-14 16:01:44.427][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2026-03-14 16:01:44.427][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2026-03-14 16:01:44.428][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.431][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2026-03-14 16:01:44.432][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2026-03-14 16:01:44.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.435][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2026-03-14 16:01:44.436][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2026-03-14 16:01:44.437][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2026-03-14 16:01:44.438][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.440][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2026-03-14 16:01:44.441][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2026-03-14 16:01:44.442][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2026-03-14 16:01:44.443][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2026-03-14 16:01:44.444][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2026-03-14 16:01:44.445][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2026-03-14 16:01:44.446][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.448][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2026-03-14 16:01:44.449][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2026-03-14 16:01:44.450][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.453][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2026-03-14 16:01:44.454][self$set] Set key entries.sep to "|".
biodb.DEBUG[2026-03-14 16:01:44.454][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.457][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2026-03-14 16:01:44.458][self$set] Set key offline to FALSE.
biodb.DEBUG[2026-03-14 16:01:44.459][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.461][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2026-03-14 16:01:44.462][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2026-03-14 16:01:44.463][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2026-03-14 16:01:44.464][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.466][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.466][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2026-03-14 16:01:44.467][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2026-03-14 16:01:44.471][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2026-03-14 16:01:44.472][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.475][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2026-03-14 16:01:44.476][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2026-03-14 16:01:44.477][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2026-03-14 16:01:44.477][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.482][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2026-03-14 16:01:44.513][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-03-14 16:01:44.528][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2026-03-14 16:01:44.529][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.530][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-03-14 16:01:44.531][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.532][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-03-14 16:01:44.532][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-03-14 16:01:44.533][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-03-14 16:01:44.534][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2026-03-14 16:01:44.535][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-03-14 16:01:44.536][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.537][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2026-03-14 16:01:44.538][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-03-14 16:01:44.539][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-03-14 16:01:44.540][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.541][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-03-14 16:01:44.541][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-03-14 16:01:44.541][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-03-14 16:01:44.541][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2026-03-14 16:01:44.541][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2026-03-14 16:01:44.542][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-03-14 16:01:44.543][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-14 16:01:44.544][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-14 16:01:44.544][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-03-14 16:01:44.545][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-14 16:01:44.546][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-14 16:01:44.547][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-03-14 16:01:44.548][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-03-14 16:01:44.549][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-03-14 16:01:44.550][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-03-14 16:01:44.551][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-03-14 16:01:44.551][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-03-14 16:01:44.553][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2026-03-14 16:01:44.554][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-03-14 16:01:44.555][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2026-03-14 16:01:44.556][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.557][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-03-14 16:01:44.558][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.559][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-03-14 16:01:44.560][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-03-14 16:01:44.561][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-03-14 16:01:44.562][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2026-03-14 16:01:44.563][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-03-14 16:01:44.563][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.564][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2026-03-14 16:01:44.565][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-03-14 16:01:44.566][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-03-14 16:01:44.567][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.568][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-03-14 16:01:44.568][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-03-14 16:01:44.568][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-03-14 16:01:44.568][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2026-03-14 16:01:44.568][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2026-03-14 16:01:44.569][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-03-14 16:01:44.570][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-14 16:01:44.571][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-14 16:01:44.572][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-03-14 16:01:44.572][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-14 16:01:44.573][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-14 16:01:44.574][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-03-14 16:01:44.575][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-03-14 16:01:44.576][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-03-14 16:01:44.577][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-03-14 16:01:44.578][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-03-14 16:01:44.579][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-03-14 16:01:44.580][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2026-03-14 16:01:44.581][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.582][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2026-03-14 16:01:44.588][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.588][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-03-14 16:01:44.589][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.590][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-03-14 16:01:44.591][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-03-14 16:01:44.592][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-03-14 16:01:44.593][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2026-03-14 16:01:44.594][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-03-14 16:01:44.595][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2026-03-14 16:01:44.596][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2026-03-14 16:01:44.597][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-03-14 16:01:44.598][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-03-14 16:01:44.599][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.600][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2026-03-14 16:01:44.601][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-03-14 16:01:44.602][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-14 16:01:44.602][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-14 16:01:44.603][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-03-14 16:01:44.604][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-14 16:01:44.605][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-14 16:01:44.606][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-03-14 16:01:44.607][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-03-14 16:01:44.608][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-03-14 16:01:44.609][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-03-14 16:01:44.609][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-03-14 16:01:44.610][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-03-14 16:01:44.611][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2026-03-14 16:01:44.613][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.614][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2026-03-14 16:01:44.615][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.616][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-03-14 16:01:44.617][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.618][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-03-14 16:01:44.619][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-03-14 16:01:44.619][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-03-14 16:01:44.620][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2026-03-14 16:01:44.621][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-03-14 16:01:44.622][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2026-03-14 16:01:44.623][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2026-03-14 16:01:44.624][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-03-14 16:01:44.625][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-03-14 16:01:44.626][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.627][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2026-03-14 16:01:44.628][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-03-14 16:01:44.629][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-14 16:01:44.629][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-14 16:01:44.630][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-03-14 16:01:44.631][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-14 16:01:44.632][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-14 16:01:44.633][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-03-14 16:01:44.634][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-03-14 16:01:44.635][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-03-14 16:01:44.636][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-03-14 16:01:44.636][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-03-14 16:01:44.637][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-03-14 16:01:44.641][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-03-14 16:01:44.642][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.643][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.647][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[2026-03-14 16:01:44.648][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.652][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.653][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.656][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.660][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.662][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.664][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.666][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.668][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.670][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.672][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.676][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[2026-03-14 16:01:44.676][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.678][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.685][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.689][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.693][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.697][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.699][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.700][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.701][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.705][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.709][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2026-03-14 16:01:44.714][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2026-03-14 16:01:44.715][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2026-03-14 16:01:44.716][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2026-03-14 16:01:44.718][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2026-03-14 16:01:44.719][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2026-03-14 16:01:44.720][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2026-03-14 16:01:44.721][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2026-03-14 16:01:44.723][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2026-03-14 16:01:44.724][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2026-03-14 16:01:44.725][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2026-03-14 16:01:44.727][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2026-03-14 16:01:44.728][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2026-03-14 16:01:44.729][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2026-03-14 16:01:44.730][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2026-03-14 16:01:44.732][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2026-03-14 16:01:44.733][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2026-03-14 16:01:44.734][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2026-03-14 16:01:44.735][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2026-03-14 16:01:44.737][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2026-03-14 16:01:44.738][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2026-03-14 16:01:44.739][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2026-03-14 16:01:44.741][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2026-03-14 16:01:44.742][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2026-03-14 16:01:44.743][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2026-03-14 16:01:44.744][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2026-03-14 16:01:44.750][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2026-03-14 16:01:44.751][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2026-03-14 16:01:44.752][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2026-03-14 16:01:44.754][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2026-03-14 16:01:44.755][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2026-03-14 16:01:44.756][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2026-03-14 16:01:44.757][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2026-03-14 16:01:44.764][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2026-03-14 16:01:44.767][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2026-03-14 16:01:44.768][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2026-03-14 16:01:44.770][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2026-03-14 16:01:44.771][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2026-03-14 16:01:44.773][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2026-03-14 16:01:44.775][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2026-03-14 16:01:44.776][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2026-03-14 16:01:44.778][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2026-03-14 16:01:44.779][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2026-03-14 16:01:44.781][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2026-03-14 16:01:44.782][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2026-03-14 16:01:44.784][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2026-03-14 16:01:44.785][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2026-03-14 16:01:44.786][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2026-03-14 16:01:44.788][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2026-03-14 16:01:44.789][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2026-03-14 16:01:44.791][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2026-03-14 16:01:44.792][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2026-03-14 16:01:44.794][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2026-03-14 16:01:44.795][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2026-03-14 16:01:44.797][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2026-03-14 16:01:44.798][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2026-03-14 16:01:44.799][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2026-03-14 16:01:44.801][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2026-03-14 16:01:44.802][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2026-03-14 16:01:44.804][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2026-03-14 16:01:44.805][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2026-03-14 16:01:44.807][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2026-03-14 16:01:44.808][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2026-03-14 16:01:44.809][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2026-03-14 16:01:44.811][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2026-03-14 16:01:44.812][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2026-03-14 16:01:44.814][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2026-03-14 16:01:44.815][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2026-03-14 16:01:44.817][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2026-03-14 16:01:44.818][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2026-03-14 16:01:44.819][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2026-03-14 16:01:44.821][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2026-03-14 16:01:44.822][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2026-03-14 16:01:44.824][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2026-03-14 16:01:44.825][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2026-03-14 16:01:44.827][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2026-03-14 16:01:44.828][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2026-03-14 16:01:44.830][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2026-03-14 16:01:44.831][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2026-03-14 16:01:44.832][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2026-03-14 16:01:44.834][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2026-03-14 16:01:44.835][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2026-03-14 16:01:44.837][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2026-03-14 16:01:44.844][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2026-03-14 16:01:44.846][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2026-03-14 16:01:44.849][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-03-14 16:01:44.850][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.852][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.858][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:44.860][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:44.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.865][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:44.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:44.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.870][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.871][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:44.873][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:44.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.878][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:44.880][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:44.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.884][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:44.886][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:44.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.891][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:44.893][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:44.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.896][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[2026-03-14 16:01:44.897][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:44.899][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:44.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.901][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.904][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:44.906][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:44.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.909][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[2026-03-14 16:01:44.910][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:44.912][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:44.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.917][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:44.919][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:44.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.923][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:44.925][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:44.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.940][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:44.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:44.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.946][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[2026-03-14 16:01:44.947][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:44.949][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:44.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.953][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:44.954][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:44.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.959][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:44.960][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:44.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.964][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:01:44.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:44.966][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:44.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:44.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:44.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:44.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:01:44.971][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/definitions.yml".
biodb.DEBUG[2026-03-14 16:01:44.980][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2026-03-14 16:01:44.982][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-03-14 16:01:44.983][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2026-03-14 16:01:44.984][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.985][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-03-14 16:01:44.986][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.987][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-03-14 16:01:44.987][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.988][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2026-03-14 16:01:44.989][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2026-03-14 16:01:44.990][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-03-14 16:01:44.991][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:44.992][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2026-03-14 16:01:44.993][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-03-14 16:01:44.994][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2026-03-14 16:01:44.994][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2026-03-14 16:01:44.994][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2026-03-14 16:01:44.994][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2026-03-14 16:01:44.994][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2026-03-14 16:01:44.994][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2026-03-14 16:01:44.994][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2026-03-14 16:01:44.994][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2026-03-14 16:01:44.994][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2026-03-14 16:01:44.994][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2026-03-14 16:01:44.994][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2026-03-14 16:01:44.995][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2026-03-14 16:01:44.996][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-03-14 16:01:44.996][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-03-14 16:01:44.996][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-03-14 16:01:44.997][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2026-03-14 16:01:44.998][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-14 16:01:44.999][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-14 16:01:45.000][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-03-14 16:01:45.000][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-14 16:01:45.001][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-14 16:01:45.002][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-03-14 16:01:45.003][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2026-03-14 16:01:45.003][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2026-03-14 16:01:45.004][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-03-14 16:01:45.005][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-03-14 16:01:45.006][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2026-03-14 16:01:45.007][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2026-03-14 16:01:45.007][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2026-03-14 16:01:45.012][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2026-03-14 16:01:45.014][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2026-03-14 16:01:45.015][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2026-03-14 16:01:45.016][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2026-03-14 16:01:45.018][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2026-03-14 16:01:45.019][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2026-03-14 16:01:45.040][super$initialize] Initialize connector chebi.
biodb.DEBUG[2026-03-14 16:01:45.055][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2026-03-14 16:01:45.063][biodb::testThat]
biodb.INFO [2026-03-14 16:01:45.063][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2026-03-14 16:01:45.064][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:01:45.065][biodb::testThat]
biodb.TRACE[2026-03-14 16:01:45.068][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2026-03-14 16:01:45.070][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-03-14 16:01:45.073][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-03-14 16:01:45.081][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-14 16:01:45.082][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:45.083][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:45.094][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:45.095][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:45.096][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:45.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-03-14 16:01:45.106][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.107][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.108][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.109][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.111][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.134][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:45.135][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:45.135][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.136][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.161][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:45.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:45.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.165][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:45.166][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:45.167][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.168][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.169][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:45.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:45.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.173][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:45.174][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:45.175][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.176][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.177][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:45.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:45.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.181][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.182][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.183][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.184][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.185][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.189][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.190][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.190][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.191][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.193][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.196][ef$get] Asked field names are: mass.
biodb.TRACE[2026-03-14 16:01:45.197][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.198][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.199][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.200][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-03-14 16:01:45.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.204][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.205][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.206][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.207][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.208][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.212][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:45.213][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:45.214][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.215][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.216][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:45.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:45.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.220][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-03-14 16:01:45.221][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:45.222][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.222][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.224][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-03-14 16:01:45.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:45.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.227][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:45.228][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:45.229][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.230][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.231][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:45.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:45.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.235][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.239][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.246][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.250][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.294][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.302][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-03-14 16:01:45.306][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2026-03-14 16:01:45.308][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:45.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:45.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.312][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:45.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:45.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.337][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.341][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.344][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.348][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.352][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-03-14 16:01:45.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-03-14 16:01:45.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.395][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-03-14 16:01:45.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-03-14 16:01:45.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.399][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-03-14 16:01:45.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-03-14 16:01:45.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.402][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-03-14 16:01:45.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-03-14 16:01:45.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.408][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.423][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.430][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.434][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.437][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.454][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.458][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.461][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.475][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.482][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.483][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.484][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.485][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.486][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.497][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.501][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.504][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.508][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.509][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.510][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.511][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.512][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:45.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.527][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:45.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:45.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.530][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:45.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:45.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.534][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:45.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:45.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.538][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:45.539][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:45.540][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.541][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.542][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:45.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:45.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.553][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:45.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:45.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.556][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:45.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:45.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.560][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:45.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:45.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.564][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:45.565][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:45.566][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.566][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.567][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:45.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:45.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.578][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.582][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.586][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.589][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.590][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.591][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.592][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.593][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.603][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.607][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.611][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.615][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.616][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.616][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.617][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.618][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.629][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:45.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:45.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.632][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:45.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:45.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.636][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:45.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:45.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.640][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:45.641][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:45.642][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.643][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.647][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:45.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:45.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.658][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:01:45.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:45.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.661][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:01:45.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:45.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.665][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:01:45.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:45.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.669][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:01:45.670][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:45.671][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.672][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.672][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:01:45.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:45.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.683][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.687][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.690][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.694][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.695][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.696][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.697][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.698][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.709][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:45.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:45.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.712][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:45.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:45.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.716][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:45.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:45.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.720][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:45.721][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:45.722][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.722][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.723][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:45.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:45.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.734][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.738][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.741][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.745][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.746][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.747][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.748][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.749][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.759][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:45.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:45.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.763][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:45.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:45.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.766][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:45.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:45.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.774][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:45.775][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:45.776][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.776][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.777][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:45.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:45.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.788][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.789][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.790][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.791][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.795][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:45.796][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:45.796][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.797][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.801][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:45.802][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:45.803][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.804][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.808][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:45.809][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:45.810][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.811][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.815][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.816][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.816][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.817][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.821][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.822][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.823][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.824][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.828][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.829][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.830][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.830][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.834][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.835][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.836][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.837][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.841][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:01:45.842][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:45.843][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.844][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.847][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:45.848][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:45.849][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.850][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.854][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:45.855][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:45.856][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.857][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.872][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-2528-content.xml".
biodb.DEBUG[2026-03-14 16:01:45.908][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-03-14 16:01:45.910][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-03-14 16:01:45.911][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-14 16:01:45.912][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:45.913][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:45.917][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:45.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:45.919][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:45.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-03-14 16:01:45.921][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.922][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.923][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.924][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.925][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:45.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:45.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.944][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:45.945][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:45.946][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.947][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.948][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:45.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:45.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.952][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:45.953][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:45.954][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.955][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.956][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:45.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:45.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.960][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:45.961][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:45.962][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.963][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.964][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:45.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:45.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.968][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.969][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.969][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.970][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.971][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:45.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.975][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.976][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.977][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.978][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.979][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:45.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.983][ef$get] Asked field names are: mass.
biodb.TRACE[2026-03-14 16:01:45.984][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.985][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.986][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.987][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-03-14 16:01:45.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:45.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.990][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.991][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.992][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.993][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.994][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:45.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:45.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:45.998][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:45.999][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:46.000][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.001][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.002][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:46.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:46.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.009][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-03-14 16:01:46.010][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.011][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.012][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.013][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-03-14 16:01:46.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.017][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:46.018][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:46.019][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.020][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.021][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:46.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:46.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.025][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.028][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.036][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.039][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.043][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.047][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.054][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.058][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-03-14 16:01:46.061][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 2528.
biodb.TRACE[2026-03-14 16:01:46.081][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:46.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:46.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.084][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:46.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:46.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.088][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.092][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.095][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.099][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.103][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-03-14 16:01:46.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-03-14 16:01:46.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.106][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-03-14 16:01:46.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-03-14 16:01:46.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.110][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-03-14 16:01:46.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-03-14 16:01:46.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.114][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-03-14 16:01:46.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-03-14 16:01:46.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.118][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.125][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.136][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.140][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.156][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.160][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.164][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.167][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.186][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.190][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.193][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.197][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.198][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.199][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.200][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.211][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.215][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.219][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.223][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.224][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.225][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.226][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.226][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.237][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:46.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:46.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.241][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:46.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:46.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.245][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:46.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:46.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.248][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:46.249][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:46.250][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.255][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.256][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:46.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:46.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.266][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:46.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:46.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.270][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:46.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:46.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.274][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:46.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:46.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.277][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:46.278][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:46.279][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.280][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.281][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:46.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:46.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.292][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-03-14 16:01:46.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.295][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.299][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.303][ef$get] Asked field names are: mass.
biodb.TRACE[2026-03-14 16:01:46.304][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.305][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.305][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.306][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-03-14 16:01:46.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.317][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.320][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.324][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.328][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.329][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.330][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.331][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.331][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.342][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.346][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.349][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.353][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.354][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.355][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.356][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.357][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.367][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:46.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:46.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.371][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:46.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:46.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.378][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:46.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:46.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.382][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:46.383][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:46.384][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.385][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.386][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:46.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:46.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.396][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.400][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.404][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.407][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.408][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.409][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.410][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.411][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.421][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.425][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.429][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.432][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.433][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.434][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.435][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.436][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.446][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:46.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:46.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.450][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:46.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:46.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.454][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:46.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:46.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.457][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:46.458][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:46.459][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.460][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.461][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:46.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:46.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.471][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.475][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.479][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.483][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.484][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.484][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.485][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.486][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.497][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:46.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:46.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.504][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:46.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:46.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.508][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:46.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:46.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.512][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:46.513][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:46.514][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.515][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.516][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:46.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:46.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.526][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.527][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.528][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.529][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.533][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:46.534][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:46.535][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.536][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.539][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:46.540][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:46.541][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.542][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.546][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:46.547][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:46.548][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.549][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.553][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.554][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.554][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.555][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.559][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.560][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.561][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.562][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.566][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.567][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.568][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.568][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.572][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.573][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.574][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.575][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.579][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.580][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.581][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.581][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.585][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:46.586][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:46.587][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.588][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.592][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:46.593][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:46.594][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.595][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.599][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-7799-content.xml".
biodb.DEBUG[2026-03-14 16:01:46.600][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-03-14 16:01:46.601][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-03-14 16:01:46.602][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-14 16:01:46.603][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:46.604][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:46.608][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:46.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:46.610][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:46.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-03-14 16:01:46.612][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.613][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.614][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.615][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.616][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.620][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:46.621][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:46.622][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.627][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.628][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:46.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:46.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.631][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:46.632][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:46.633][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.634][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.635][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:46.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:46.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.639][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:46.640][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:46.641][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.642][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.643][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:46.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:46.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.647][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.648][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.649][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.649][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.650][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.654][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.655][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.656][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.657][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.658][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.662][ef$get] Asked field names are: mass.
biodb.TRACE[2026-03-14 16:01:46.663][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.664][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.665][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.666][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-03-14 16:01:46.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.669][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.670][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.671][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.672][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.673][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.677][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:46.678][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:46.679][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.680][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.681][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:46.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:46.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.685][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-03-14 16:01:46.686][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.687][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.688][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.689][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-03-14 16:01:46.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:46.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.692][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:46.693][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:46.694][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.695][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.696][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:46.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:46.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.704][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.707][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.718][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.730][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-03-14 16:01:46.737][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 7799.
biodb.TRACE[2026-03-14 16:01:46.739][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:46.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:46.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.743][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:46.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:46.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.746][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.754][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.757][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.761][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.765][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-03-14 16:01:46.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-03-14 16:01:46.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.768][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-03-14 16:01:46.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-03-14 16:01:46.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.772][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-03-14 16:01:46.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-03-14 16:01:46.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.776][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-03-14 16:01:46.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-03-14 16:01:46.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.781][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.788][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.802][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.811][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.815][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.819][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.823][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:01:46.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.835][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.846][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.847][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.848][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.849][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.850][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:46.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:46.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.860][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:46.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:46.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.864][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:46.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:46.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.868][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:46.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:46.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.871][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:46.872][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:46.873][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.874][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.875][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:46.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:46.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.889][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:46.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:46.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.893][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:46.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:46.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.897][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:46.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:46.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.900][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:46.901][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:46.902][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.903][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.904][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:46.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:46.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.915][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.918][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.922][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.926][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.927][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.927][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.928][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.929][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:46.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.940][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.943][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.947][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.951][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.952][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.953][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.954][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.955][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:46.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.965][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.969][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.972][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.976][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.977][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.978][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.979][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.980][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:46.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.990][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.994][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:46.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:46.998][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:46.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:47.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.005][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:47.006][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:47.007][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.008][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.009][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:47.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:47.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.019][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:47.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:47.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.023][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:47.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:47.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.027][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:47.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:47.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.031][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:47.032][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:47.032][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.033][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.034][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:47.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:47.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.045][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:01:47.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:47.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.048][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:01:47.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:47.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.052][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:01:47.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:47.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.056][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:01:47.057][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:47.058][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.059][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.059][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:01:47.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:47.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.070][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:47.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:47.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.074][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:47.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:47.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.077][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:47.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:47.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.081][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:47.082][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:47.083][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.084][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.085][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:47.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:47.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.095][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:47.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:47.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.099][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:47.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:47.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.103][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:47.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:47.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.106][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:47.107][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:47.108][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.109][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.110][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:47.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:47.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.121][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:01:47.122][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:01:47.123][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.127][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.131][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:01:47.132][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:01:47.133][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.134][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.138][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:01:47.139][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:01:47.140][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.141][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.145][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:01:47.146][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:01:47.147][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.147][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.151][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:01:47.152][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:01:47.153][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.154][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.158][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:47.159][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:01:47.160][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.161][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.165][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:47.166][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:01:47.167][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.167][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.171][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:47.172][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:01:47.173][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.174][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.178][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:01:47.179][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:01:47.180][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.181][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.185][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:01:47.186][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:01:47.187][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.188][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:01:47.191][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:01:47.192][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:01:47.193][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:01:47.194][ef$get] fields variable is a list.
biodb.INFO [2026-03-14 16:01:47.200][biodb::testThat]
biodb.INFO [2026-03-14 16:01:47.201][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2026-03-14 16:01:47.202][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:01:47.203][biodb::testThat]
biodb.DEBUG[2026-03-14 16:01:47.205][private$loadEntries] Creating entries from ids [3]: "15440, 2528, 7799".
biodb.DEBUG[2026-03-14 16:01:47.208][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2026-03-14 16:01:47.211][cch$loadContents] Load 3 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2026-03-14 16:01:47.212][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2026-03-14 16:01:47.213][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2026-03-14 16:01:47.214][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2026-03-14 16:01:47.215][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2026-03-14 16:01:47.221][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-14 16:01:47.222][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:47.223][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:47.227][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:47.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:47.228][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:47.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2026-03-14 16:01:47.231][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
fscache.INFO [2026-03-14 16:01:47.254][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2026-03-14 16:01:47.255][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:01:47.256][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:01:47.257][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-14 16:01:48.047][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-14 16:01:48.048][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:01:48.049][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:01:48.051][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-14 16:01:48.746][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-14 16:01:48.749][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:01:48.751][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:01:48.754][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-14 16:01:49.078][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[2026-03-14 16:01:49.081][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:01:49.083][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:01:49.085][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-14 16:01:49.581][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-14 16:01:49.583][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:01:49.586][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:01:49.589][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-14 16:01:49.917][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-14 16:01:49.919][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:01:49.921][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:01:49.923][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-14 16:01:50.417][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-14 16:01:50.419][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:01:50.422][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:01:50.425][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-14 16:01:50.759][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-14 16:01:50.763][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:01:50.765][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:01:50.768][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-14 16:01:51.265][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-14 16:01:51.267][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:01:51.270][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:01:51.273][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-14 16:01:51.600][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-14 16:01:51.602][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:01:51.605][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:01:51.607][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-14 16:01:52.101][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-14 16:01:52.104][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:01:52.106][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:01:52.109][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-14 16:01:52.437][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-14 16:01:52.440][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:01:52.444][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:01:52.447][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-14 16:01:52.945][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-14 16:01:52.949][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:01:52.952][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:01:52.956][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-14 16:01:53.290][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-14 16:01:53.294][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:01:53.297][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:01:53.300][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-14 16:01:53.824][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-14 16:01:53.828][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:01:53.831][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:01:53.835][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-14 16:01:54.165][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-14 16:01:54.169][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:01:54.172][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:01:54.176][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-14 16:01:54.675][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-14 16:01:54.678][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:01:54.681][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:01:54.686][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-14 16:01:55.014][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-14 16:01:55.017][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:01:55.020][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:01:55.023][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-14 16:01:55.522][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-14 16:01:55.525][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:01:55.528][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:01:55.531][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-14 16:01:55.857][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-14 16:01:55.859][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:01:55.862][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:01:55.864][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-14 16:01:56.358][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
biodb.DEBUG[2026-03-14 16:01:56.363][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-14 16:01:56.365][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:01:56.368][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:01:56.382][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:01:56.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:01:56.386][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:01:56.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2026-03-14 16:01:56.422][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
fscache.INFO [2026-03-14 16:01:56.495][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2026-03-14 16:01:56.510][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:01:56.511][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:01:56.513][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-14 16:01:56.801][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-14 16:01:56.803][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:01:56.805][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:01:56.807][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-14 16:01:57.297][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-14 16:01:57.299][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:01:57.300][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:01:57.302][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-14 16:01:57.591][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-14 16:01:57.593][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:01:57.595][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:01:57.597][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-14 16:01:58.091][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-14 16:01:58.093][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:01:58.096][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:01:58.099][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-14 16:01:58.428][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-14 16:01:58.430][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:01:58.431][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:01:58.432][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-14 16:01:58.925][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-14 16:01:58.927][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:01:58.930][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:01:58.933][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-14 16:01:59.265][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-14 16:01:59.267][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:01:59.279][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:01:59.284][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-14 16:01:59.782][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-14 16:01:59.785][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:01:59.788][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:01:59.791][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-14 16:02:00.120][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-14 16:02:00.123][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:00.125][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:00.127][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-14 16:02:00.621][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:00.624][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:00.626][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:00.630][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-14 16:02:00.958][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-14 16:02:00.960][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:00.963][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:00.965][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-14 16:02:01.461][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:01.463][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:01.466][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:01.469][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-14 16:02:01.797][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-14 16:02:01.800][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:01.802][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:01.804][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-14 16:02:02.298][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:02.301][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:02.303][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:02.306][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-14 16:02:02.633][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-14 16:02:02.636][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:02.638][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:02.703][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-14 16:02:03.184][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:03.187][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:03.189][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:03.193][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-14 16:02:03.524][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-14 16:02:03.526][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:03.529][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:03.531][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-14 16:02:04.021][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:04.023][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:04.026][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:04.029][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-14 16:02:04.356][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-14 16:02:04.358][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:04.361][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:04.363][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-14 16:02:04.856][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
biodb.DEBUG[2026-03-14 16:02:04.859][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-14 16:02:04.861][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:02:04.863][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:02:04.875][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:04.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:04.880][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:04.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2026-03-14 16:02:04.885][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
fscache.INFO [2026-03-14 16:02:04.890][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2026-03-14 16:02:04.892][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:04.895][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:04.898][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-14 16:02:05.212][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-14 16:02:05.215][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:05.217][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:05.219][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-14 16:02:05.711][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:05.714][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:05.716][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:05.719][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-14 16:02:06.044][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-14 16:02:06.046][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:06.048][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:06.051][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-14 16:02:06.543][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:06.546][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:06.548][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:06.552][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-14 16:02:06.879][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-14 16:02:06.882][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:06.885][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:06.888][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-14 16:02:07.381][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:07.384][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:07.387][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:07.391][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-14 16:02:07.716][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-14 16:02:07.718][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:07.721][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:07.723][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-14 16:02:08.215][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:08.218][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:08.221][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:08.225][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-14 16:02:08.560][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-14 16:02:08.563][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:08.565][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:08.567][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-14 16:02:09.063][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:09.066][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:09.069][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:09.074][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-14 16:02:09.369][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-14 16:02:09.371][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:09.372][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:09.373][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-14 16:02:09.828][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:09.829][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:09.831][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:09.832][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-14 16:02:10.127][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-14 16:02:10.129][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:10.131][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:10.134][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-14 16:02:10.633][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:10.635][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:10.638][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:10.641][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-14 16:02:10.969][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-14 16:02:10.972][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:10.974][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:10.977][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-14 16:02:11.472][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:11.475][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:11.478][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:11.481][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-14 16:02:11.810][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-14 16:02:11.813][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:11.815][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:11.818][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-14 16:02:12.313][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:12.316][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:12.318][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:12.322][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-14 16:02:12.649][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-14 16:02:12.651][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:12.654][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:12.656][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-14 16:02:13.152][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
fscache.INFO [2026-03-14 16:02:13.157][cch$saveContents] Save 3 contents to /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2026-03-14 16:02:13.160][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2026-03-14 16:02:13.164][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2026-03-14 16:02:13.167][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2026-03-14 16:02:13.234][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-14 16:02:13.235][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:02:13.236][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:02:13.241][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:13.242][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:13.243][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:13.244][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-03-14 16:02:13.246][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:13.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:13.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:13.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:13.250][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:13.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:13.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:13.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:13.254][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:13.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:13.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:13.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-03-14 16:02:13.258][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-14 16:02:13.259][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:02:13.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:02:13.265][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:13.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:13.267][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:13.267][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-03-14 16:02:13.269][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:13.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:13.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:13.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:13.273][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:13.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:13.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:13.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:13.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:13.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:13.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:13.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-03-14 16:02:13.281][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-14 16:02:13.282][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:02:13.283][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:02:13.288][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:13.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:13.290][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:13.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-03-14 16:02:13.292][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:13.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:13.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:13.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:13.296][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:13.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:13.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:13.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:13.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:13.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:13.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:13.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:13.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:13.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:13.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:13.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:13.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:13.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:13.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:13.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:13.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:13.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:13.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:13.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:13.316][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:13.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:13.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:13.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:13.320][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:13.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:13.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:13.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:13.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:13.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:13.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:13.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:13.327][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:13.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:13.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:13.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:13.331][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:13.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:13.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:13.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:13.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:13.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:13.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:13.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:13.339][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:13.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:13.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:13.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:13.342][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:13.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:13.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:13.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:13.346][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:13.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:13.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:13.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:13.350][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:13.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:13.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:13.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:13.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:13.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:13.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:13.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:13.361][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:13.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:13.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:13.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-03-14 16:02:13.365][self$createEntryFromContent] Accession numbers: NA, NA, NA.
biodb.DEBUG[2026-03-14 16:02:13.366][self$createEntryFromContent] Found 3 entry/ies without an accession number. Set it/them to NULL.
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-14 16:02:13.498][biodb::testThat]
biodb.INFO [2026-03-14 16:02:13.499][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2026-03-14 16:02:13.500][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:13.501][biodb::testThat]
biodb.TRACE[2026-03-14 16:02:13.504][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:02:13.505][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:02:13.506][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:13.507][ef$get] fields variable is a list.
biodb.DEBUG[2026-03-14 16:02:13.508][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-14 16:02:13.882][biodb::testThat]
biodb.INFO [2026-03-14 16:02:13.883][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2026-03-14 16:02:13.884][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:13.885][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-14 16:02:13.975][biodb::testThat]
biodb.INFO [2026-03-14 16:02:13.977][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2026-03-14 16:02:13.978][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:13.978][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-14 16:02:14.077][biodb::testThat]
biodb.INFO [2026-03-14 16:02:14.078][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2026-03-14 16:02:14.079][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:14.080][biodb::testThat]
biodb.INFO [2026-03-14 16:02:14.090][biodb::testThat]
biodb.INFO [2026-03-14 16:02:14.091][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2026-03-14 16:02:14.092][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:14.093][biodb::testThat]
biodb.INFO [2026-03-14 16:02:14.100][biodb::testThat]
biodb.INFO [2026-03-14 16:02:14.102][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2026-03-14 16:02:14.103][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:14.104][biodb::testThat]
biodb.DEBUG[2026-03-14 16:02:14.108][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2026-03-14 16:02:14.583][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2026-03-14 16:02:14.962][biodb::testThat]
biodb.INFO [2026-03-14 16:02:14.965][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2026-03-14 16:02:14.967][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:14.969][biodb::testThat]
biodb.TRACE[2026-03-14 16:02:15.023][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:02:15.024][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:02:15.025][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:15.026][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:15.027][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:15.029][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:15.030][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:15.031][ef$get] fields variable is a list.
biodb.INFO [2026-03-14 16:02:15.032][biodb::testThat]
biodb.INFO [2026-03-14 16:02:15.033][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2026-03-14 16:02:15.034][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:15.035][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-14 16:02:15.136][biodb::testThat]
biodb.INFO [2026-03-14 16:02:15.137][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2026-03-14 16:02:15.139][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:15.139][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-14 16:02:15.186][biodb::testThat]
biodb.INFO [2026-03-14 16:02:15.187][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2026-03-14 16:02:15.188][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:15.189][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-14 16:02:15.234][biodb::testThat]
biodb.INFO [2026-03-14 16:02:15.236][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2026-03-14 16:02:15.237][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:15.238][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.TRACE[2026-03-14 16:02:15.282][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:02:15.284][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:02:15.285][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:15.286][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:15.287][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:15.288][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:15.289][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:15.290][ef$get] fields variable is a list.
biodb.INFO [2026-03-14 16:02:15.291][biodb::testThat]
biodb.INFO [2026-03-14 16:02:15.292][biodb::testThat] Running test function  test.annotateMzValues_real_values  (" annotateMzValues() works correctly with real values. ").
biodb.INFO [2026-03-14 16:02:15.293][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:15.294][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-14 16:02:15.339][biodb::testThat]
biodb.INFO [2026-03-14 16:02:15.340][biodb::testThat] Running test function  test_annotateMzValues_additional_fields  (" Additional fields are accepted in annotateMzValues() ").
biodb.INFO [2026-03-14 16:02:15.341][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:15.342][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-14 16:02:15.386][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2026-03-14 16:02:15.387][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2026-03-14 16:02:15.388][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2026-03-14 16:02:15.389][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:02:15.390][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:02:15.391][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:15.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:15.393][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:15.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ 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)