Back to Long Tests report for BioC 3.22

This page was generated on 2026-01-03 23:55 -0500 (Sat, 03 Jan 2026).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.2 (2025-10-31) -- "[Not] Part in a Rumble" 4883
merida1macOS 12.7.6 Montereyx86_644.5.2 (2025-10-31) -- "[Not] Part in a Rumble" 4673
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 5/31HostnameOS / ArchCHECK
biodbChebi 1.16.0  (landing page)
Pierrick Roger
Snapshot Date: 2026-01-03 09:55 -0500 (Sat, 03 Jan 2026)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: RELEASE_3_22
git_last_commit: 28c1b2d
git_last_commit_date: 2025-10-29 11:12:25 -0500 (Wed, 29 Oct 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  ERROR  
merida1macOS 12.7.6 Monterey / x86_64  ERROR  

CHECK results for biodbChebi on nebbiolo2

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

raw results


Summary

Package: biodbChebi
Version: 1.16.0
Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbChebi_1.16.0.tar.gz
StartedAt: 2026-01-03 16:01:07 -0500 (Sat, 03 Jan 2026)
EndedAt: 2026-01-03 16:02:23 -0500 (Sat, 03 Jan 2026)
EllapsedTime: 75.0 seconds
RetCode: 1
Status:   ERROR  
CheckDir: biodbChebi.Rcheck
Warnings: NA

Tests output

biodbChebi.Rcheck/tests/testthat.Rout.fail


R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
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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 [2026-01-03 16:01:44.953][biodb::testContext]
biodb.INFO [2026-01-03 16:01:44.955][biodb::testContext] ********************************************************************************
biodb.INFO [2026-01-03 16:01:44.964][biodb::testContext] Test context - Generic long tests
biodb.INFO [2026-01-03 16:01:44.964][biodb::testContext] ********************************************************************************
biodb.INFO [2026-01-03 16:01:44.965][biodb::testContext]
biodb.INFO [2026-01-03 16:01:44.971][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2026-01-03 16:01:44.973][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2026-01-03 16:01:44.979][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-01-03 16:01:44.980][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2026-01-03 16:01:44.981][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2026-01-03 16:01:44.982][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:44.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:44.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:44.984][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2026-01-03 16:01:45.000][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2026-01-03 16:01:45.001][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.004][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2026-01-03 16:01:45.005][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2026-01-03 16:01:45.005][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.008][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2026-01-03 16:01:45.009][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2026-01-03 16:01:45.010][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2026-01-03 16:01:45.011][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.013][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2026-01-03 16:01:45.014][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2026-01-03 16:01:45.015][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2026-01-03 16:01:45.016][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.019][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2026-01-03 16:01:45.019][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2026-01-03 16:01:45.020][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.023][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2026-01-03 16:01:45.024][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2026-01-03 16:01:45.025][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2026-01-03 16:01:45.026][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.028][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2026-01-03 16:01:45.029][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2026-01-03 16:01:45.030][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.032][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2026-01-03 16:01:45.033][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2026-01-03 16:01:45.034][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2026-01-03 16:01:45.035][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.038][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2026-01-03 16:01:45.039][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2026-01-03 16:01:45.040][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2026-01-03 16:01:45.041][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2026-01-03 16:01:45.042][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2026-01-03 16:01:45.042][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2026-01-03 16:01:45.043][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.046][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2026-01-03 16:01:45.047][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2026-01-03 16:01:45.048][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.050][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2026-01-03 16:01:45.051][self$set] Set key entries.sep to "|".
biodb.DEBUG[2026-01-03 16:01:45.052][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.055][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2026-01-03 16:01:45.056][self$set] Set key offline to FALSE.
biodb.DEBUG[2026-01-03 16:01:45.056][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.058][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.059][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2026-01-03 16:01:45.060][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2026-01-03 16:01:45.061][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2026-01-03 16:01:45.062][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.064][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2026-01-03 16:01:45.065][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2026-01-03 16:01:45.069][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2026-01-03 16:01:45.070][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.071][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.073][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2026-01-03 16:01:45.074][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2026-01-03 16:01:45.075][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2026-01-03 16:01:45.075][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.080][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2026-01-03 16:01:45.111][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-01-03 16:01:45.125][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2026-01-03 16:01:45.126][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-01-03 16:01:45.127][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-01-03 16:01:45.128][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-01-03 16:01:45.129][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-01-03 16:01:45.130][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-01-03 16:01:45.131][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-01-03 16:01:45.131][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2026-01-03 16:01:45.132][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-01-03 16:01:45.133][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-01-03 16:01:45.134][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2026-01-03 16:01:45.135][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-01-03 16:01:45.136][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-01-03 16:01:45.137][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-01-03 16:01:45.138][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-01-03 16:01:45.138][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-01-03 16:01:45.138][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-01-03 16:01:45.138][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2026-01-03 16:01:45.138][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2026-01-03 16:01:45.139][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-01-03 16:01:45.140][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-03 16:01:45.141][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-03 16:01:45.141][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-01-03 16:01:45.142][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-03 16:01:45.143][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-03 16:01:45.144][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-01-03 16:01:45.145][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-01-03 16:01:45.146][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-01-03 16:01:45.147][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-01-03 16:01:45.148][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-01-03 16:01:45.148][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-01-03 16:01:45.150][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2026-01-03 16:01:45.151][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-01-03 16:01:45.152][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2026-01-03 16:01:45.158][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-01-03 16:01:45.159][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-01-03 16:01:45.160][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-01-03 16:01:45.161][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-01-03 16:01:45.162][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-01-03 16:01:45.163][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-01-03 16:01:45.164][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2026-01-03 16:01:45.165][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-01-03 16:01:45.166][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-01-03 16:01:45.167][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2026-01-03 16:01:45.168][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-01-03 16:01:45.169][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-01-03 16:01:45.169][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-01-03 16:01:45.170][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-01-03 16:01:45.170][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-01-03 16:01:45.170][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-01-03 16:01:45.170][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2026-01-03 16:01:45.170][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2026-01-03 16:01:45.171][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-01-03 16:01:45.172][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-03 16:01:45.173][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-03 16:01:45.174][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-01-03 16:01:45.175][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-03 16:01:45.175][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-03 16:01:45.176][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-01-03 16:01:45.177][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-01-03 16:01:45.178][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-01-03 16:01:45.179][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-01-03 16:01:45.180][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-01-03 16:01:45.181][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-01-03 16:01:45.182][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2026-01-03 16:01:45.183][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2026-01-03 16:01:45.184][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2026-01-03 16:01:45.185][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-01-03 16:01:45.186][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-01-03 16:01:45.187][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-01-03 16:01:45.188][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-01-03 16:01:45.189][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-01-03 16:01:45.190][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-01-03 16:01:45.191][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2026-01-03 16:01:45.192][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-01-03 16:01:45.193][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2026-01-03 16:01:45.194][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2026-01-03 16:01:45.194][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-01-03 16:01:45.195][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-01-03 16:01:45.196][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-01-03 16:01:45.197][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2026-01-03 16:01:45.198][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-01-03 16:01:45.199][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-03 16:01:45.200][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-03 16:01:45.201][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-01-03 16:01:45.202][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-03 16:01:45.202][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-03 16:01:45.203][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-01-03 16:01:45.204][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-01-03 16:01:45.205][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-01-03 16:01:45.206][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-01-03 16:01:45.207][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-01-03 16:01:45.208][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-01-03 16:01:45.209][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2026-01-03 16:01:45.210][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2026-01-03 16:01:45.211][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2026-01-03 16:01:45.212][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-01-03 16:01:45.213][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-01-03 16:01:45.214][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-01-03 16:01:45.215][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-01-03 16:01:45.216][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-01-03 16:01:45.217][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-01-03 16:01:45.218][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2026-01-03 16:01:45.219][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-01-03 16:01:45.220][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2026-01-03 16:01:45.220][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2026-01-03 16:01:45.221][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-01-03 16:01:45.222][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-01-03 16:01:45.223][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-01-03 16:01:45.224][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2026-01-03 16:01:45.225][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-01-03 16:01:45.226][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-03 16:01:45.227][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-03 16:01:45.228][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-01-03 16:01:45.229][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-03 16:01:45.229][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-03 16:01:45.230][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-01-03 16:01:45.231][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-01-03 16:01:45.232][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-01-03 16:01:45.233][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-01-03 16:01:45.234][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-01-03 16:01:45.235][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-01-03 16:01:45.238][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-01-03 16:01:45.239][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.241][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:45.242][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:45.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.244][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.DEBUG[2026-01-03 16:01:45.245][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:45.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:45.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.249][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:45.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:45.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.252][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.253][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:45.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:45.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.257][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:45.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:45.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.261][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:45.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:45.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.266][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:45.267][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:45.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.270][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:45.271][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:45.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.274][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:45.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:45.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.278][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:45.279][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:45.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.282][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:45.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:45.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.286][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:45.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:45.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.290][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:45.292][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:45.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.294][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:45.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:45.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.298][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:45.300][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:45.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.302][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:45.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:45.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.307][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2026-01-03 16:01:45.311][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2026-01-03 16:01:45.312][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2026-01-03 16:01:45.313][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2026-01-03 16:01:45.315][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2026-01-03 16:01:45.316][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2026-01-03 16:01:45.317][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2026-01-03 16:01:45.319][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2026-01-03 16:01:45.320][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2026-01-03 16:01:45.321][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2026-01-03 16:01:45.322][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2026-01-03 16:01:45.324][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2026-01-03 16:01:45.325][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2026-01-03 16:01:45.326][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2026-01-03 16:01:45.327][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2026-01-03 16:01:45.329][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2026-01-03 16:01:45.330][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2026-01-03 16:01:45.331][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2026-01-03 16:01:45.333][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2026-01-03 16:01:45.334][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2026-01-03 16:01:45.335][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2026-01-03 16:01:45.336][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2026-01-03 16:01:45.338][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2026-01-03 16:01:45.339][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2026-01-03 16:01:45.340][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2026-01-03 16:01:45.342][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2026-01-03 16:01:45.343][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2026-01-03 16:01:45.355][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2026-01-03 16:01:45.357][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2026-01-03 16:01:45.358][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2026-01-03 16:01:45.360][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2026-01-03 16:01:45.361][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2026-01-03 16:01:45.363][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2026-01-03 16:01:45.364][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2026-01-03 16:01:45.366][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2026-01-03 16:01:45.367][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2026-01-03 16:01:45.369][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2026-01-03 16:01:45.370][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2026-01-03 16:01:45.372][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2026-01-03 16:01:45.373][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2026-01-03 16:01:45.375][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2026-01-03 16:01:45.376][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2026-01-03 16:01:45.378][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2026-01-03 16:01:45.379][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2026-01-03 16:01:45.381][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2026-01-03 16:01:45.382][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2026-01-03 16:01:45.384][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2026-01-03 16:01:45.385][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2026-01-03 16:01:45.387][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2026-01-03 16:01:45.388][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2026-01-03 16:01:45.390][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2026-01-03 16:01:45.391][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2026-01-03 16:01:45.393][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2026-01-03 16:01:45.395][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2026-01-03 16:01:45.396][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2026-01-03 16:01:45.398][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2026-01-03 16:01:45.399][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2026-01-03 16:01:45.401][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2026-01-03 16:01:45.402][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2026-01-03 16:01:45.403][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2026-01-03 16:01:45.405][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2026-01-03 16:01:45.406][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2026-01-03 16:01:45.408][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2026-01-03 16:01:45.409][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2026-01-03 16:01:45.411][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2026-01-03 16:01:45.412][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2026-01-03 16:01:45.413][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2026-01-03 16:01:45.415][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2026-01-03 16:01:45.416][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2026-01-03 16:01:45.418][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2026-01-03 16:01:45.419][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2026-01-03 16:01:45.421][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2026-01-03 16:01:45.422][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2026-01-03 16:01:45.424][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2026-01-03 16:01:45.425][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2026-01-03 16:01:45.426][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2026-01-03 16:01:45.428][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2026-01-03 16:01:45.429][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2026-01-03 16:01:45.431][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2026-01-03 16:01:45.432][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2026-01-03 16:01:45.434][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2026-01-03 16:01:45.435][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2026-01-03 16:01:45.437][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2026-01-03 16:01:45.443][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2026-01-03 16:01:45.445][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2026-01-03 16:01:45.449][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-01-03 16:01:45.450][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:45.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:45.452][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.458][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-03 16:01:45.459][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-03 16:01:45.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:45.461][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:45.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.463][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.464][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-03 16:01:45.466][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-03 16:01:45.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:45.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:45.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.471][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-03 16:01:45.472][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-03 16:01:45.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:45.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:45.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.477][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-03 16:01:45.479][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-03 16:01:45.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:45.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:45.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.483][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-03 16:01:45.485][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-03 16:01:45.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:45.487][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:45.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.489][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.490][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-03 16:01:45.492][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-03 16:01:45.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:45.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:45.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-03 16:01:45.498][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-03 16:01:45.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:45.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:45.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.502][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.503][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-03 16:01:45.504][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-03 16:01:45.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:45.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:45.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.509][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-03 16:01:45.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-03 16:01:45.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:45.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:45.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.515][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-03 16:01:45.517][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-03 16:01:45.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:45.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:45.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.522][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-03 16:01:45.523][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-03 16:01:45.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:45.525][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:45.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.528][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-03 16:01:45.530][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-03 16:01:45.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:45.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:45.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.534][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-03 16:01:45.536][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-03 16:01:45.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:45.538][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:45.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.541][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-03 16:01:45.543][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-03 16:01:45.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:45.544][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:45.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.546][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.547][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-03 16:01:45.549][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-03 16:01:45.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:45.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:45.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.553][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-01-03 16:01:45.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-03 16:01:45.555][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-03 16:01:45.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:45.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:45.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-01-03 16:01:45.570][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/definitions.yml".
biodb.DEBUG[2026-01-03 16:01:45.579][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2026-01-03 16:01:45.580][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-01-03 16:01:45.581][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2026-01-03 16:01:45.582][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-01-03 16:01:45.583][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-01-03 16:01:45.584][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-01-03 16:01:45.585][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-01-03 16:01:45.586][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2026-01-03 16:01:45.587][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2026-01-03 16:01:45.588][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2026-01-03 16:01:45.589][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-01-03 16:01:45.590][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-01-03 16:01:45.591][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2026-01-03 16:01:45.592][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-01-03 16:01:45.592][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2026-01-03 16:01:45.592][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2026-01-03 16:01:45.592][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2026-01-03 16:01:45.592][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2026-01-03 16:01:45.592][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2026-01-03 16:01:45.592][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2026-01-03 16:01:45.592][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2026-01-03 16:01:45.592][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2026-01-03 16:01:45.592][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2026-01-03 16:01:45.592][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2026-01-03 16:01:45.592][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2026-01-03 16:01:45.593][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2026-01-03 16:01:45.594][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-01-03 16:01:45.594][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-01-03 16:01:45.594][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-01-03 16:01:45.595][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2026-01-03 16:01:45.596][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-03 16:01:45.597][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-03 16:01:45.598][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-01-03 16:01:45.599][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-01-03 16:01:45.600][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-01-03 16:01:45.601][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-01-03 16:01:45.602][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2026-01-03 16:01:45.602][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2026-01-03 16:01:45.602][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-01-03 16:01:45.603][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-01-03 16:01:45.604][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2026-01-03 16:01:45.605][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2026-01-03 16:01:45.605][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2026-01-03 16:01:45.611][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2026-01-03 16:01:45.612][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2026-01-03 16:01:45.614][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2026-01-03 16:01:45.615][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2026-01-03 16:01:45.616][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2026-01-03 16:01:45.618][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2026-01-03 16:01:45.639][super$initialize] Initialize connector chebi.
biodb.DEBUG[2026-01-03 16:01:45.653][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2026-01-03 16:01:45.660][biodb::testThat]
biodb.INFO [2026-01-03 16:01:45.661][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2026-01-03 16:01:45.662][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-03 16:01:45.663][biodb::testThat]
biodb.TRACE[2026-01-03 16:01:45.666][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2026-01-03 16:01:45.668][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-01-03 16:01:45.671][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-01-03 16:01:45.679][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-03 16:01:45.679][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-03 16:01:45.680][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-03 16:01:45.692][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:45.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:45.694][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:45.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-01-03 16:01:45.703][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:45.704][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:45.705][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.706][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.708][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:45.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:45.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.723][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-03 16:01:45.724][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-03 16:01:45.724][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.725][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.750][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-03 16:01:45.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-03 16:01:45.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.754][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-03 16:01:45.755][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-03 16:01:45.756][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.757][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.758][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-03 16:01:45.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-03 16:01:45.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.771][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-03 16:01:45.772][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-03 16:01:45.773][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.774][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.775][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-03 16:01:45.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-03 16:01:45.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.778][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-03 16:01:45.779][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-03 16:01:45.780][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.781][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.782][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-03 16:01:45.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-03 16:01:45.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.786][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:45.787][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:45.788][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.789][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.790][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:45.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:45.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.794][ef$get] Asked field names are: mass.
biodb.TRACE[2026-01-03 16:01:45.795][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:45.795][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.796][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.797][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-01-03 16:01:45.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:45.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.801][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:45.802][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:45.803][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.804][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.805][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:45.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:45.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.809][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-03 16:01:45.810][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-03 16:01:45.811][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.812][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.813][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-03 16:01:45.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-03 16:01:45.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.817][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-01-03 16:01:45.818][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-03 16:01:45.819][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.820][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.821][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-01-03 16:01:45.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-03 16:01:45.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.824][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-03 16:01:45.825][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-03 16:01:45.826][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.827][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.828][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-03 16:01:45.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-03 16:01:45.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.832][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:01:45.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:01:45.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.836][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:01:45.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:01:45.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.840][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:45.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:45.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.843][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:01:45.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:01:45.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:45.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:45.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:45.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:45.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:45.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:45.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.889][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:45.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:45.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.892][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:45.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:45.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:45.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:45.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-01-03 16:01:45.900][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2026-01-03 16:01:45.902][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-03 16:01:45.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-03 16:01:45.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.906][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-03 16:01:45.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-03 16:01:45.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.934][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-03 16:01:45.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-03 16:01:45.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.937][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-03 16:01:45.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-03 16:01:45.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.941][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:45.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:45.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.945][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:45.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:45.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.948][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-01-03 16:01:45.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-01-03 16:01:45.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.952][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-01-03 16:01:45.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-01-03 16:01:45.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.956][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-01-03 16:01:45.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-01-03 16:01:45.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.959][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-01-03 16:01:45.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-01-03 16:01:45.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.965][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:45.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:45.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.980][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:01:45.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:01:45.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.987][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:45.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:45.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:45.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:45.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:45.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:45.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:45.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:45.999][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:46.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:46.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:46.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:46.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.007][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:46.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:46.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.011][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.014][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.018][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.027][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:46.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:46.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.031][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:46.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:46.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:46.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:46.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.038][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:46.039][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:46.040][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.041][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.042][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:46.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:46.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.053][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.056][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.060][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.097][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.098][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.099][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.100][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.101][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.111][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-03 16:01:46.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-03 16:01:46.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.115][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-03 16:01:46.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-03 16:01:46.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.118][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-03 16:01:46.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-03 16:01:46.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.122][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-03 16:01:46.123][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-03 16:01:46.124][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.125][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.126][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-03 16:01:46.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-03 16:01:46.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.136][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-03 16:01:46.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-03 16:01:46.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.140][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-03 16:01:46.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-03 16:01:46.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.143][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-03 16:01:46.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-03 16:01:46.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.147][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-03 16:01:46.148][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-03 16:01:46.149][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.150][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.151][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-03 16:01:46.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-03 16:01:46.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.161][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:46.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:46.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.165][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:46.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:46.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.169][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:46.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:46.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.172][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:46.173][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:46.174][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.175][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.176][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:46.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:46.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:46.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:46.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.190][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:46.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:46.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.194][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:46.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:46.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.198][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:46.199][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:46.199][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.200][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.201][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:46.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:46.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.212][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-03 16:01:46.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-03 16:01:46.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.215][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-03 16:01:46.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-03 16:01:46.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.219][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-03 16:01:46.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-03 16:01:46.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.223][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-03 16:01:46.224][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-03 16:01:46.225][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.225][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.226][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-03 16:01:46.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-03 16:01:46.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.237][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-03 16:01:46.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-03 16:01:46.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.240][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-03 16:01:46.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-03 16:01:46.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.244][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-03 16:01:46.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-03 16:01:46.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.252][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-03 16:01:46.252][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-03 16:01:46.253][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.254][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.255][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-03 16:01:46.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-03 16:01:46.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.265][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:46.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:46.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.269][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:46.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:46.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.273][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:46.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:46.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.276][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:46.277][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:46.278][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.279][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.280][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:46.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:46.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.290][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-03 16:01:46.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-03 16:01:46.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.294][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-03 16:01:46.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-03 16:01:46.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.298][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-03 16:01:46.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-03 16:01:46.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.302][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-03 16:01:46.303][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-03 16:01:46.303][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.304][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.305][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-03 16:01:46.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-03 16:01:46.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.316][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-03 16:01:46.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-03 16:01:46.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.319][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-03 16:01:46.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-03 16:01:46.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.323][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-03 16:01:46.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-03 16:01:46.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.327][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-03 16:01:46.328][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-03 16:01:46.329][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.330][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.330][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-03 16:01:46.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-03 16:01:46.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.341][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-03 16:01:46.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-03 16:01:46.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.344][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-03 16:01:46.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-03 16:01:46.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.348][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-03 16:01:46.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-03 16:01:46.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.352][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-03 16:01:46.353][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-03 16:01:46.354][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.354][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.355][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-03 16:01:46.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-03 16:01:46.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.366][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:46.367][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:46.368][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.368][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.372][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-03 16:01:46.373][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-03 16:01:46.374][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.375][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.379][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-03 16:01:46.380][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-03 16:01:46.381][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.382][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.386][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-03 16:01:46.387][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-03 16:01:46.387][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.388][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.392][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-03 16:01:46.393][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-03 16:01:46.394][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.395][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.399][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:46.403][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:46.404][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.405][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.409][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:46.410][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:46.411][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.412][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.415][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:46.416][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:46.417][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.418][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.422][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-03 16:01:46.423][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-03 16:01:46.423][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.424][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.428][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-03 16:01:46.429][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-03 16:01:46.430][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.431][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.435][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-03 16:01:46.436][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-03 16:01:46.436][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.437][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.453][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-2528-content.xml".
biodb.DEBUG[2026-01-03 16:01:46.485][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-01-03 16:01:46.487][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-01-03 16:01:46.488][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-03 16:01:46.489][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-03 16:01:46.490][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-03 16:01:46.494][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:46.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:46.495][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:46.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-01-03 16:01:46.498][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:46.499][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:46.500][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.501][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.502][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:46.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:46.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.521][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-03 16:01:46.522][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-03 16:01:46.523][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.524][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.525][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-03 16:01:46.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-03 16:01:46.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.529][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-03 16:01:46.530][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-03 16:01:46.531][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.532][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.533][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-03 16:01:46.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-03 16:01:46.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.541][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-03 16:01:46.542][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-03 16:01:46.543][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.544][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.545][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-03 16:01:46.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-03 16:01:46.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.548][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-03 16:01:46.549][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-03 16:01:46.550][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.551][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.552][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-03 16:01:46.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-03 16:01:46.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.556][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:46.557][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:46.558][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.558][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.560][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:46.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:46.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.563][ef$get] Asked field names are: mass.
biodb.TRACE[2026-01-03 16:01:46.564][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:46.565][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.566][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.567][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-01-03 16:01:46.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:46.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.571][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:46.572][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:46.573][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.573][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.575][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:46.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:46.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.578][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-03 16:01:46.579][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-03 16:01:46.580][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.581][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.582][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-03 16:01:46.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-03 16:01:46.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.586][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-01-03 16:01:46.587][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-03 16:01:46.588][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.589][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.590][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-01-03 16:01:46.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-03 16:01:46.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.593][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-03 16:01:46.594][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-03 16:01:46.595][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.596][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.597][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-03 16:01:46.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-03 16:01:46.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.601][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.605][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.608][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:46.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:46.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.612][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.616][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:46.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:46.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:46.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:46.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:46.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:46.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:46.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:46.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.631][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:46.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:46.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:46.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:46.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-01-03 16:01:46.638][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 2528.
biodb.TRACE[2026-01-03 16:01:46.657][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-03 16:01:46.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-03 16:01:46.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.661][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-03 16:01:46.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-03 16:01:46.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.664][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-03 16:01:46.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-03 16:01:46.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.668][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-03 16:01:46.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-03 16:01:46.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.672][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:46.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:46.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.675][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:46.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:46.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.679][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-01-03 16:01:46.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-01-03 16:01:46.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.683][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-01-03 16:01:46.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-01-03 16:01:46.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.686][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-01-03 16:01:46.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-01-03 16:01:46.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.694][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-01-03 16:01:46.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-01-03 16:01:46.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:46.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:46.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.705][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.712][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:46.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:46.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:46.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:46.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:46.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:46.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:46.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:46.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:46.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:46.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.732][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:46.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:46.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.736][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.739][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.743][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:46.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:46.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:46.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:46.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:46.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:46.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.773][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:46.774][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:46.774][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.775][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.776][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:46.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:46.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.787][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.790][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.794][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.798][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.799][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.800][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.800][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.801][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:01:46.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.812][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-03 16:01:46.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-03 16:01:46.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.815][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-03 16:01:46.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-03 16:01:46.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.819][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-03 16:01:46.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-03 16:01:46.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.823][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-03 16:01:46.824][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-03 16:01:46.824][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.825][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.826][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-03 16:01:46.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-03 16:01:46.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.837][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-03 16:01:46.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-03 16:01:46.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.844][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-03 16:01:46.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-03 16:01:46.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.848][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-03 16:01:46.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-03 16:01:46.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.851][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-03 16:01:46.852][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-03 16:01:46.853][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.854][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.855][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-03 16:01:46.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-03 16:01:46.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.865][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-01-03 16:01:46.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:46.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.869][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:46.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:46.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.872][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:46.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:46.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.876][ef$get] Asked field names are: mass.
biodb.TRACE[2026-01-03 16:01:46.877][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:46.878][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.879][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.880][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-01-03 16:01:46.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:46.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.890][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:46.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:46.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.894][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:46.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:46.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.898][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:46.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:46.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.901][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:46.902][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:46.903][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.904][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.905][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:46.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:46.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.915][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:46.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:46.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.919][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:46.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:46.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.923][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:46.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:46.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.926][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:46.927][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:46.928][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.929][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.930][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:46.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:46.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.940][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-03 16:01:46.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-03 16:01:46.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.944][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-03 16:01:46.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-03 16:01:46.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.948][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-03 16:01:46.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-03 16:01:46.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.951][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-03 16:01:46.952][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-03 16:01:46.953][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.954][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.955][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-03 16:01:46.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-03 16:01:46.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.965][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-03 16:01:46.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-03 16:01:46.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.969][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-03 16:01:46.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-03 16:01:46.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.973][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-03 16:01:46.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-03 16:01:46.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.976][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-03 16:01:46.977][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-03 16:01:46.978][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.979][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.980][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-03 16:01:46.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-03 16:01:46.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.994][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:46.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:46.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:46.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:46.998][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:46.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:46.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.001][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:47.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:47.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.005][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:47.006][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:47.007][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.008][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.009][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:47.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:47.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.019][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-03 16:01:47.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-03 16:01:47.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.023][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-03 16:01:47.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-03 16:01:47.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.026][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-03 16:01:47.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-03 16:01:47.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.030][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-03 16:01:47.031][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-03 16:01:47.032][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.033][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.034][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-03 16:01:47.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-03 16:01:47.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.044][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-03 16:01:47.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-03 16:01:47.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.048][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-03 16:01:47.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-03 16:01:47.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.051][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-03 16:01:47.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-03 16:01:47.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.055][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-03 16:01:47.056][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-03 16:01:47.057][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.058][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.059][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-03 16:01:47.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-03 16:01:47.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.069][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-03 16:01:47.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-03 16:01:47.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.073][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-03 16:01:47.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-03 16:01:47.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.077][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-03 16:01:47.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-03 16:01:47.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.080][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-03 16:01:47.081][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-03 16:01:47.082][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.083][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.084][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-03 16:01:47.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-03 16:01:47.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.094][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:47.095][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:47.096][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.097][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.101][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-03 16:01:47.102][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-03 16:01:47.103][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.103][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.107][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-03 16:01:47.108][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-03 16:01:47.109][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.110][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.114][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-03 16:01:47.115][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-03 16:01:47.116][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.116][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.120][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-03 16:01:47.121][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-03 16:01:47.122][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.123][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.127][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:47.128][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:47.129][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.129][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.133][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:47.134][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:47.135][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.136][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.140][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:47.141][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:47.145][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.146][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.150][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-03 16:01:47.151][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-03 16:01:47.152][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.153][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.156][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-03 16:01:47.157][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-03 16:01:47.158][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.159][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.163][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-03 16:01:47.164][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-03 16:01:47.165][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.166][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.170][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-7799-content.xml".
biodb.DEBUG[2026-01-03 16:01:47.171][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-01-03 16:01:47.172][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-01-03 16:01:47.173][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-03 16:01:47.174][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-03 16:01:47.175][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-03 16:01:47.179][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:47.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:47.180][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:47.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-01-03 16:01:47.183][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:47.184][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:47.185][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.186][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.187][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:47.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:47.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.191][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-03 16:01:47.192][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-03 16:01:47.193][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.194][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.195][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-03 16:01:47.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-03 16:01:47.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.199][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-03 16:01:47.200][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-03 16:01:47.200][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.201][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.202][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-03 16:01:47.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-03 16:01:47.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.206][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-03 16:01:47.207][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-03 16:01:47.208][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.209][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.210][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-03 16:01:47.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-03 16:01:47.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.214][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-03 16:01:47.215][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-03 16:01:47.216][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.217][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.218][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-03 16:01:47.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-03 16:01:47.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.222][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:47.223][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:47.223][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.224][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.225][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:47.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:47.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.229][ef$get] Asked field names are: mass.
biodb.TRACE[2026-01-03 16:01:47.230][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:47.231][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.232][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.233][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-01-03 16:01:47.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:47.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.237][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:47.238][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:47.239][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.239][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.241][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:47.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:47.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.244][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-03 16:01:47.245][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-03 16:01:47.246][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.247][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.248][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-03 16:01:47.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-03 16:01:47.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.252][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-01-03 16:01:47.253][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-03 16:01:47.254][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.255][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.256][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-01-03 16:01:47.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-03 16:01:47.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.259][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-03 16:01:47.260][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-03 16:01:47.261][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.262][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.263][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-03 16:01:47.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-03 16:01:47.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.267][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:01:47.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:01:47.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.271][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:01:47.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:01:47.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.274][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:47.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:47.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.278][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:01:47.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:01:47.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.282][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:47.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:47.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.285][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:47.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:47.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:47.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:47.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:47.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:47.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:47.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:47.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:47.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:47.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-01-03 16:01:47.307][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 7799.
biodb.TRACE[2026-01-03 16:01:47.309][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-03 16:01:47.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-03 16:01:47.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.313][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-03 16:01:47.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-03 16:01:47.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.316][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-03 16:01:47.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-03 16:01:47.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.320][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-03 16:01:47.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-03 16:01:47.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.324][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:47.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:47.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.327][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:47.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:47.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.331][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-01-03 16:01:47.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-01-03 16:01:47.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.335][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-01-03 16:01:47.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-01-03 16:01:47.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.338][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-01-03 16:01:47.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-01-03 16:01:47.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.342][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-01-03 16:01:47.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-01-03 16:01:47.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:47.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:47.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.354][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:01:47.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:01:47.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.361][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:47.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:47.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.365][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:47.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:47.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:47.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:47.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.374][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:47.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:47.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.377][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:47.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:47.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:47.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:47.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.385][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:01:47.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:01:47.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.389][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:01:47.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:01:47.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.392][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:01:47.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:01:47.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:47.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:47.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.405][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:47.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:47.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.408][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:47.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:47.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.412][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:47.413][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:47.414][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.415][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.416][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:47.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:47.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.426][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-03 16:01:47.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-03 16:01:47.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.430][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-03 16:01:47.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-03 16:01:47.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.434][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-03 16:01:47.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-03 16:01:47.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.437][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-03 16:01:47.438][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-03 16:01:47.439][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.440][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.441][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-01-03 16:01:47.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-03 16:01:47.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.455][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-03 16:01:47.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-03 16:01:47.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.459][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-03 16:01:47.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-03 16:01:47.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.462][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-03 16:01:47.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-03 16:01:47.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.466][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-03 16:01:47.467][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-03 16:01:47.468][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.469][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.470][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-01-03 16:01:47.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-03 16:01:47.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.480][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-03 16:01:47.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-03 16:01:47.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.483][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-03 16:01:47.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-03 16:01:47.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.487][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-03 16:01:47.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-03 16:01:47.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.491][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-03 16:01:47.492][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-03 16:01:47.493][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.493][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.494][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-03 16:01:47.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-03 16:01:47.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.505][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:47.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:47.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.508][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:47.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:47.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.512][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:47.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:47.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.516][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:47.517][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:47.518][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.519][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.520][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:47.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:47.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.530][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:47.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:47.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.534][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:47.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:47.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.537][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:47.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:47.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.541][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:47.542][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:47.543][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.544][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.545][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:47.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:47.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.555][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:47.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:47.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.559][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:47.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:47.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:47.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:47.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.566][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:47.567][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:47.568][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.569][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.570][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:47.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:47.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.580][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-03 16:01:47.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-03 16:01:47.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.584][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-03 16:01:47.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-03 16:01:47.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.588][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-03 16:01:47.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-03 16:01:47.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.591][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-03 16:01:47.592][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-03 16:01:47.593][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.594][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.595][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-01-03 16:01:47.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-03 16:01:47.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.609][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-03 16:01:47.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-03 16:01:47.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.613][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-03 16:01:47.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-03 16:01:47.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.616][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-03 16:01:47.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-03 16:01:47.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.620][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-03 16:01:47.621][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-03 16:01:47.622][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.622][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.623][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-03 16:01:47.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-03 16:01:47.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.634][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-03 16:01:47.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-03 16:01:47.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.637][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-03 16:01:47.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-03 16:01:47.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.641][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-03 16:01:47.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-03 16:01:47.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.645][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-03 16:01:47.646][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-03 16:01:47.646][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.647][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.648][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-01-03 16:01:47.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-01-03 16:01:47.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.659][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-03 16:01:47.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-03 16:01:47.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.662][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-03 16:01:47.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-03 16:01:47.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.666][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-03 16:01:47.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-03 16:01:47.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.670][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-03 16:01:47.671][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-03 16:01:47.672][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.673][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.674][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-01-03 16:01:47.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-03 16:01:47.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.684][ef$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:01:47.685][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:01:47.686][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.687][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.691][ef$get] Asked field names are: charge.
biodb.TRACE[2026-01-03 16:01:47.692][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-01-03 16:01:47.692][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.693][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.697][ef$get] Asked field names are: formula.
biodb.TRACE[2026-01-03 16:01:47.698][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-01-03 16:01:47.699][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.700][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.704][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-01-03 16:01:47.705][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-01-03 16:01:47.705][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.706][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.710][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-01-03 16:01:47.711][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-01-03 16:01:47.712][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.713][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.716][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:47.717][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-01-03 16:01:47.718][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.719][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.723][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:47.724][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-01-03 16:01:47.725][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.726][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.729][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:47.730][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:01:47.731][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.732][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.736][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-01-03 16:01:47.737][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-01-03 16:01:47.738][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.739][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.742][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-03 16:01:47.743][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-03 16:01:47.744][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.745][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:01:47.749][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-01-03 16:01:47.750][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-01-03 16:01:47.751][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:01:47.755][ef$get] fields variable is a list.
biodb.INFO [2026-01-03 16:01:47.761][biodb::testThat]
biodb.INFO [2026-01-03 16:01:47.762][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2026-01-03 16:01:47.763][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-03 16:01:47.764][biodb::testThat]
biodb.DEBUG[2026-01-03 16:01:47.766][private$loadEntries] Creating entries from ids [3]: "15440, 2528, 7799".
biodb.DEBUG[2026-01-03 16:01:47.768][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2026-01-03 16:01:47.771][cch$loadContents] Load 3 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2026-01-03 16:01:47.773][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2026-01-03 16:01:47.773][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2026-01-03 16:01:47.774][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2026-01-03 16:01:47.775][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2026-01-03 16:01:47.781][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-03 16:01:47.782][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-03 16:01:47.783][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-03 16:01:47.786][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:47.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:47.788][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:47.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2026-01-03 16:01:47.791][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
fscache.INFO [2026-01-03 16:01:47.810][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2026-01-03 16:01:47.811][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-03 16:01:47.812][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-03 16:01:47.813][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-03 16:01:48.883][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-03 16:01:48.884][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-03 16:01:48.885][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-03 16:01:48.886][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-03 16:01:49.864][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-03 16:01:49.866][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-03 16:01:49.868][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-03 16:01:49.871][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-03 16:01:50.306][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-03 16:01:50.308][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-03 16:01:50.310][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-03 16:01:50.312][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-03 16:01:51.311][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-03 16:01:51.313][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-03 16:01:51.315][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-03 16:01:51.318][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-03 16:01:51.754][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-03 16:01:51.756][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-03 16:01:51.758][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-03 16:01:51.760][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-03 16:01:52.314][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-03 16:01:52.316][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-03 16:01:52.317][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-03 16:01:52.318][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-03 16:01:52.726][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-03 16:01:52.728][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-03 16:01:52.729][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-03 16:01:52.730][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-03 16:01:53.255][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-03 16:01:53.257][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-03 16:01:53.258][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-03 16:01:53.259][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-03 16:01:53.669][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-03 16:01:53.670][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-03 16:01:53.672][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-03 16:01:53.673][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-03 16:01:54.198][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-03 16:01:54.200][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-03 16:01:54.201][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-03 16:01:54.202][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-03 16:01:54.613][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-03 16:01:54.614][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-03 16:01:54.615][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-03 16:01:54.617][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-03 16:01:55.143][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-03 16:01:55.144][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-03 16:01:55.145][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-03 16:01:55.147][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-03 16:01:55.573][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-03 16:01:55.575][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-03 16:01:55.576][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-03 16:01:55.577][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-03 16:01:56.128][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-03 16:01:56.131][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-03 16:01:56.134][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-03 16:01:56.138][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-03 16:01:56.575][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-03 16:01:56.577][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-03 16:01:56.579][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-03 16:01:56.581][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-03 16:01:57.142][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-03 16:01:57.145][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-03 16:01:57.147][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-03 16:01:57.150][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-03 16:01:57.592][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-03 16:01:57.594][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-03 16:01:57.596][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-03 16:01:57.598][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-03 16:01:58.160][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-01-03 16:01:58.162][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-03 16:01:58.165][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-03 16:01:58.168][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-01-03 16:01:58.608][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-01-03 16:01:58.610][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-03 16:01:58.612][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-03 16:01:58.614][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-01-03 16:01:59.174][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
biodb.DEBUG[2026-01-03 16:01:59.179][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-03 16:01:59.181][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-03 16:01:59.184][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-03 16:01:59.198][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:01:59.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:01:59.202][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:01:59.233][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2026-01-03 16:01:59.255][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
fscache.INFO [2026-01-03 16:01:59.287][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2026-01-03 16:01:59.303][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-03 16:01:59.304][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-03 16:01:59.305][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-03 16:01:59.705][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-03 16:01:59.706][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-03 16:01:59.708][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-03 16:01:59.710][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-03 16:02:00.269][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-03 16:02:00.271][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-03 16:02:00.274][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-03 16:02:00.277][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-03 16:02:00.720][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-03 16:02:00.722][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-03 16:02:00.724][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-03 16:02:00.725][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-03 16:02:01.282][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-03 16:02:01.284][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-03 16:02:01.287][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-03 16:02:01.290][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-03 16:02:01.731][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-03 16:02:01.733][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-03 16:02:01.735][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-03 16:02:01.737][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-03 16:02:02.296][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-03 16:02:02.298][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-03 16:02:02.301][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-03 16:02:02.304][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-03 16:02:02.745][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-03 16:02:02.747][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-03 16:02:02.749][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-03 16:02:02.750][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-03 16:02:03.311][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-03 16:02:03.314][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-03 16:02:03.316][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-03 16:02:03.319][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-03 16:02:03.757][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-03 16:02:03.759][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-03 16:02:03.762][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-03 16:02:03.764][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-03 16:02:04.323][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-03 16:02:04.325][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-03 16:02:04.328][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-03 16:02:04.331][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-03 16:02:04.773][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-03 16:02:04.774][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-03 16:02:04.776][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-03 16:02:04.778][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-03 16:02:05.341][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-03 16:02:05.343][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-03 16:02:05.345][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-03 16:02:05.348][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-03 16:02:05.788][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-03 16:02:05.790][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-03 16:02:05.791][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-03 16:02:05.793][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-03 16:02:06.355][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-03 16:02:06.357][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-03 16:02:06.359][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-03 16:02:06.362][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-03 16:02:06.821][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-03 16:02:06.826][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-03 16:02:06.829][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-03 16:02:06.831][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-03 16:02:07.387][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-03 16:02:07.390][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-03 16:02:07.393][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-03 16:02:07.396][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-03 16:02:07.840][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-03 16:02:07.842][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-03 16:02:07.872][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-03 16:02:07.874][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-03 16:02:08.425][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-01-03 16:02:08.427][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-03 16:02:08.428][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-03 16:02:08.429][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-01-03 16:02:08.862][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-01-03 16:02:08.863][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-03 16:02:08.865][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-03 16:02:08.866][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-01-03 16:02:09.415][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
biodb.DEBUG[2026-01-03 16:02:09.417][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-03 16:02:09.418][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-03 16:02:09.419][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-03 16:02:09.425][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:02:09.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:02:09.427][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:02:09.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2026-01-03 16:02:09.429][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
fscache.INFO [2026-01-03 16:02:09.432][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2026-01-03 16:02:09.433][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-03 16:02:09.434][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-03 16:02:09.436][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-03 16:02:09.839][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-03 16:02:09.841][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-03 16:02:09.843][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-03 16:02:09.844][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-03 16:02:10.399][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-03 16:02:10.402][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-03 16:02:10.405][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-03 16:02:10.408][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-03 16:02:10.849][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-03 16:02:10.851][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-03 16:02:10.853][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-03 16:02:10.855][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-03 16:02:11.422][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-03 16:02:11.424][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-03 16:02:11.425][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-03 16:02:11.426][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-03 16:02:11.826][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-03 16:02:11.828][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-03 16:02:11.830][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-03 16:02:11.832][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-03 16:02:12.379][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-03 16:02:12.380][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-03 16:02:12.381][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-03 16:02:12.382][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-03 16:02:12.780][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-03 16:02:12.781][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-03 16:02:12.783][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-03 16:02:12.784][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-03 16:02:13.298][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-03 16:02:13.300][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-03 16:02:13.301][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-03 16:02:13.302][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-03 16:02:13.734][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-03 16:02:13.736][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-03 16:02:13.737][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-03 16:02:13.738][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-03 16:02:14.252][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-03 16:02:14.254][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-03 16:02:14.255][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-03 16:02:14.256][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-03 16:02:14.685][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-03 16:02:14.686][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-03 16:02:14.687][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-03 16:02:14.688][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-03 16:02:15.205][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-03 16:02:15.206][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-03 16:02:15.207][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-03 16:02:15.209][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-03 16:02:15.641][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-03 16:02:15.642][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-03 16:02:15.643][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-03 16:02:15.644][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-03 16:02:16.157][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-03 16:02:16.159][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-03 16:02:16.160][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-03 16:02:16.161][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-03 16:02:16.568][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-03 16:02:16.570][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-03 16:02:16.571][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-03 16:02:16.572][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-03 16:02:17.086][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-03 16:02:17.088][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-03 16:02:17.089][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-03 16:02:17.090][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-03 16:02:17.494][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-03 16:02:17.496][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-03 16:02:17.498][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-03 16:02:17.500][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-03 16:02:18.064][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-01-03 16:02:18.066][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-01-03 16:02:18.069][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-01-03 16:02:18.072][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-01-03 16:02:18.542][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-01-03 16:02:18.544][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-01-03 16:02:18.546][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-01-03 16:02:18.548][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-01-03 16:02:19.110][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
fscache.INFO [2026-01-03 16:02:19.114][cch$saveContents] Save 3 contents to /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2026-01-03 16:02:19.116][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2026-01-03 16:02:19.120][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2026-01-03 16:02:19.123][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2026-01-03 16:02:19.126][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-03 16:02:19.129][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-03 16:02:19.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-03 16:02:19.142][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:02:19.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:02:19.146][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:02:19.148][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-01-03 16:02:19.152][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:02:19.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:02:19.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:02:19.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:02:19.159][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:02:19.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:02:19.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:02:19.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:02:19.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:02:19.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:02:19.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:02:19.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-01-03 16:02:19.172][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-03 16:02:19.173][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-03 16:02:19.174][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-03 16:02:19.179][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:02:19.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:02:19.182][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:02:19.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-01-03 16:02:19.185][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:02:19.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:02:19.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:02:19.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:02:19.189][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:02:19.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:02:19.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:02:19.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:02:19.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:02:19.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:02:19.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:02:19.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-01-03 16:02:19.202][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-01-03 16:02:19.202][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-03 16:02:19.203][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-03 16:02:19.207][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:02:19.208][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:02:19.209][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:02:19.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-01-03 16:02:19.211][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:02:19.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:02:19.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:02:19.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:02:19.215][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-01-03 16:02:19.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-01-03 16:02:19.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:02:19.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:02:19.219][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:02:19.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:02:19.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:02:19.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:02:19.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:02:19.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:02:19.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:02:19.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:02:19.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:02:19.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:02:19.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:02:19.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:02:19.230][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:02:19.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:02:19.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:02:19.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:02:19.234][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:02:19.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:02:19.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:02:19.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:02:19.238][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:02:19.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:02:19.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:02:19.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:02:19.242][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:02:19.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:02:19.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:02:19.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:02:19.245][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:02:19.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:02:19.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:02:19.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:02:19.249][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:02:19.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:02:19.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:02:19.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:02:19.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:02:19.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:02:19.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:02:19.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:02:19.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:02:19.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:02:19.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:02:19.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:02:19.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:02:19.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:02:19.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:02:19.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:02:19.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:02:19.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:02:19.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:02:19.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:02:19.268][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:02:19.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:02:19.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:02:19.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:02:19.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:02:19.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:02:19.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:02:19.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:02:19.276][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-01-03 16:02:19.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-01-03 16:02:19.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:02:19.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-01-03 16:02:19.280][self$createEntryFromContent] Accession numbers: NA, NA, NA.
biodb.DEBUG[2026-01-03 16:02:19.281][self$createEntryFromContent] Found 3 entry/ies without an accession number. Set it/them to NULL.
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-03 16:02:19.414][biodb::testThat]
biodb.INFO [2026-01-03 16:02:19.416][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2026-01-03 16:02:19.417][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-03 16:02:19.418][biodb::testThat]
biodb.TRACE[2026-01-03 16:02:19.431][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-03 16:02:19.434][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-03 16:02:19.435][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:02:19.436][ef$get] fields variable is a list.
biodb.DEBUG[2026-01-03 16:02:19.438][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-03 16:02:19.694][biodb::testThat]
biodb.INFO [2026-01-03 16:02:19.695][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2026-01-03 16:02:19.696][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-03 16:02:19.697][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-03 16:02:19.792][biodb::testThat]
biodb.INFO [2026-01-03 16:02:19.793][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2026-01-03 16:02:19.794][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-03 16:02:19.794][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-03 16:02:19.891][biodb::testThat]
biodb.INFO [2026-01-03 16:02:19.892][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2026-01-03 16:02:19.893][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-03 16:02:19.893][biodb::testThat]
biodb.INFO [2026-01-03 16:02:19.901][biodb::testThat]
biodb.INFO [2026-01-03 16:02:19.902][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2026-01-03 16:02:19.903][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-03 16:02:19.904][biodb::testThat]
biodb.INFO [2026-01-03 16:02:19.915][biodb::testThat]
biodb.INFO [2026-01-03 16:02:19.915][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2026-01-03 16:02:19.916][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-03 16:02:19.917][biodb::testThat]
biodb.DEBUG[2026-01-03 16:02:19.921][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2026-01-03 16:02:20.532][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2026-01-03 16:02:21.011][biodb::testThat]
biodb.INFO [2026-01-03 16:02:21.012][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2026-01-03 16:02:21.013][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-03 16:02:21.014][biodb::testThat]
biodb.TRACE[2026-01-03 16:02:21.032][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-03 16:02:21.033][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-03 16:02:21.034][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:02:21.035][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:02:21.035][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:02:21.036][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:02:21.037][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:02:21.038][ef$get] fields variable is a list.
biodb.INFO [2026-01-03 16:02:21.040][biodb::testThat]
biodb.INFO [2026-01-03 16:02:21.041][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2026-01-03 16:02:21.042][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-03 16:02:21.043][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-03 16:02:21.162][biodb::testThat]
biodb.INFO [2026-01-03 16:02:21.163][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2026-01-03 16:02:21.164][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-03 16:02:21.165][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-03 16:02:21.211][biodb::testThat]
biodb.INFO [2026-01-03 16:02:21.212][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2026-01-03 16:02:21.213][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-03 16:02:21.214][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-03 16:02:21.255][biodb::testThat]
biodb.INFO [2026-01-03 16:02:21.257][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2026-01-03 16:02:21.257][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-03 16:02:21.258][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.TRACE[2026-01-03 16:02:21.303][ef$get] Asked field names are: name.
biodb.TRACE[2026-01-03 16:02:21.304][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-01-03 16:02:21.305][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:02:21.306][ef$get] fields variable is a list.
biodb.TRACE[2026-01-03 16:02:21.307][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:02:21.308][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-01-03 16:02:21.309][ef$get] 1 fields were returned.
biodb.TRACE[2026-01-03 16:02:21.310][ef$get] fields variable is a list.
biodb.INFO [2026-01-03 16:02:21.311][biodb::testThat]
biodb.INFO [2026-01-03 16:02:21.312][biodb::testThat] Running test function  test.annotateMzValues_real_values  (" annotateMzValues() works correctly with real values. ").
biodb.INFO [2026-01-03 16:02:21.313][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-03 16:02:21.314][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-03 16:02:21.354][biodb::testThat]
biodb.INFO [2026-01-03 16:02:21.355][biodb::testThat] Running test function  test_annotateMzValues_additional_fields  (" Additional fields are accepted in annotateMzValues() ").
biodb.INFO [2026-01-03 16:02:21.356][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-01-03 16:02:21.357][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-01-03 16:02:21.401][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2026-01-03 16:02:21.402][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2026-01-03 16:02:21.403][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2026-01-03 16:02:21.404][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-01-03 16:02:21.405][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-01-03 16:02:21.406][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2026-01-03 16:02:21.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-01-03 16:02:21.407][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2026-01-03 16:02:21.408][FUN] Functions in observer 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)