Back to Long Tests report for BioC 3.22

This page was generated on 2026-02-28 23:55 -0500 (Sat, 28 Feb 2026).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.2 (2025-10-31) -- "[Not] Part in a Rumble" 4891
merida1macOS 12.7.6 Montereyx86_644.5.2 (2025-10-31) -- "[Not] Part in a Rumble" 4681
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: 2026-02-28 09:55 -0500 (Sat, 28 Feb 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: 2026-02-28 16:01:09 -0500 (Sat, 28 Feb 2026)
EndedAt: 2026-02-28 16:02:29 -0500 (Sat, 28 Feb 2026)
EllapsedTime: 80.0 seconds
RetCode: 1
Status:   ERROR  
CheckDir: biodbChebi.Rcheck
Warnings: NA

Tests output

biodbChebi.Rcheck/tests/testthat.Rout.fail


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

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Type 'license()' or 'licence()' for distribution details.

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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 [2026-02-28 16:01:45.198][biodb::testContext]
biodb.INFO [2026-02-28 16:01:45.200][biodb::testContext] ********************************************************************************
biodb.INFO [2026-02-28 16:01:45.201][biodb::testContext] Test context - Generic long tests
biodb.INFO [2026-02-28 16:01:45.202][biodb::testContext] ********************************************************************************
biodb.INFO [2026-02-28 16:01:45.202][biodb::testContext]
biodb.INFO [2026-02-28 16:01:45.209][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2026-02-28 16:01:45.210][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2026-02-28 16:01:45.217][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-02-28 16:01:45.218][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2026-02-28 16:01:45.219][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2026-02-28 16:01:45.220][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:45.222][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2026-02-28 16:01:45.239][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2026-02-28 16:01:45.240][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.242][FUN] Functions in observer BiodbConfig: [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[2026-02-28 16:01:45.243][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2026-02-28 16:01:45.244][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2026-02-28 16:01:45.245][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:45.247][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2026-02-28 16:01:45.248][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2026-02-28 16:01:45.249][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2026-02-28 16:01:45.250][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 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[2026-02-28 16:01:45.253][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2026-02-28 16:01:45.254][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2026-02-28 16:01:45.255][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2026-02-28 16:01:45.255][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:45.258][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2026-02-28 16:01:45.259][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2026-02-28 16:01:45.260][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 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[2026-02-28 16:01:45.270][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2026-02-28 16:01:45.271][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2026-02-28 16:01:45.272][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2026-02-28 16:01:45.273][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:45.276][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2026-02-28 16:01:45.277][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2026-02-28 16:01:45.277][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.279][FUN] Functions in observer BiodbConfig: [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[2026-02-28 16:01:45.280][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2026-02-28 16:01:45.281][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2026-02-28 16:01:45.282][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2026-02-28 16:01:45.283][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:45.285][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2026-02-28 16:01:45.286][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2026-02-28 16:01:45.287][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2026-02-28 16:01:45.288][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2026-02-28 16:01:45.289][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2026-02-28 16:01:45.290][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2026-02-28 16:01:45.291][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.292][FUN] Functions in observer BiodbConfig: [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[2026-02-28 16:01:45.293][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2026-02-28 16:01:45.294][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2026-02-28 16:01:45.295][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:45.298][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2026-02-28 16:01:45.299][self$set] Set key entries.sep to "|".
biodb.DEBUG[2026-02-28 16:01:45.299][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.301][FUN] Functions in observer BiodbConfig: [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[2026-02-28 16:01:45.302][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2026-02-28 16:01:45.303][self$set] Set key offline to FALSE.
biodb.DEBUG[2026-02-28 16:01:45.304][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:45.306][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2026-02-28 16:01:45.307][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2026-02-28 16:01:45.308][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2026-02-28 16:01:45.309][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.311][FUN] Functions in observer BiodbConfig: [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[2026-02-28 16:01:45.312][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2026-02-28 16:01:45.313][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2026-02-28 16:01:45.317][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2026-02-28 16:01:45.317][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:45.320][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2026-02-28 16:01:45.321][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2026-02-28 16:01:45.322][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2026-02-28 16:01:45.323][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.324][FUN] Functions in observer BiodbConfig: [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[2026-02-28 16:01:45.328][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2026-02-28 16:01:45.358][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-02-28 16:01:45.372][self$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[2026-02-28 16:01:45.373][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:45.374][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-02-28 16:01:45.375][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:45.376][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-02-28 16:01:45.377][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-02-28 16:01:45.378][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-02-28 16:01:45.379][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2026-02-28 16:01:45.380][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-02-28 16:01:45.381][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:45.382][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2026-02-28 16:01:45.383][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-02-28 16:01:45.384][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-02-28 16:01:45.384][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:45.385][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-02-28 16:01:45.385][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-02-28 16:01:45.385][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-02-28 16:01:45.385][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2026-02-28 16:01:45.385][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2026-02-28 16:01:45.386][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-02-28 16:01:45.387][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-02-28 16:01:45.388][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-02-28 16:01:45.389][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-02-28 16:01:45.390][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-02-28 16:01:45.391][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-02-28 16:01:45.392][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-02-28 16:01:45.392][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-02-28 16:01:45.393][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-02-28 16:01:45.394][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-02-28 16:01:45.395][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-02-28 16:01:45.396][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-02-28 16:01:45.397][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2026-02-28 16:01:45.399][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-02-28 16:01:45.400][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2026-02-28 16:01:45.400][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:45.401][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-02-28 16:01:45.402][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:45.403][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-02-28 16:01:45.404][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-02-28 16:01:45.405][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-02-28 16:01:45.406][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2026-02-28 16:01:45.407][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-02-28 16:01:45.408][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:45.409][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2026-02-28 16:01:45.410][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-02-28 16:01:45.411][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-02-28 16:01:45.411][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:45.412][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-02-28 16:01:45.412][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-02-28 16:01:45.412][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-02-28 16:01:45.412][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2026-02-28 16:01:45.412][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2026-02-28 16:01:45.413][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-02-28 16:01:45.414][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-02-28 16:01:45.415][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-02-28 16:01:45.416][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-02-28 16:01:45.417][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-02-28 16:01:45.418][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-02-28 16:01:45.418][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-02-28 16:01:45.419][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-02-28 16:01:45.420][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-02-28 16:01:45.421][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-02-28 16:01:45.422][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-02-28 16:01:45.423][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-02-28 16:01:45.424][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2026-02-28 16:01:45.426][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:45.426][self$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[2026-02-28 16:01:45.432][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:45.433][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-02-28 16:01:45.434][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:45.435][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-02-28 16:01:45.436][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-02-28 16:01:45.436][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-02-28 16:01:45.437][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2026-02-28 16:01:45.438][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-02-28 16:01:45.439][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2026-02-28 16:01:45.440][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2026-02-28 16:01:45.441][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-02-28 16:01:45.442][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-02-28 16:01:45.443][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:45.444][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2026-02-28 16:01:45.445][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-02-28 16:01:45.446][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-02-28 16:01:45.447][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-02-28 16:01:45.447][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-02-28 16:01:45.448][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-02-28 16:01:45.449][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-02-28 16:01:45.450][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-02-28 16:01:45.451][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-02-28 16:01:45.452][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-02-28 16:01:45.453][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-02-28 16:01:45.454][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-02-28 16:01:45.455][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-02-28 16:01:45.456][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2026-02-28 16:01:45.457][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:45.458][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2026-02-28 16:01:45.459][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:45.460][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-02-28 16:01:45.461][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:45.462][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-02-28 16:01:45.463][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-02-28 16:01:45.464][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-02-28 16:01:45.465][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2026-02-28 16:01:45.465][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-02-28 16:01:45.466][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2026-02-28 16:01:45.467][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2026-02-28 16:01:45.468][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-02-28 16:01:45.469][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-02-28 16:01:45.470][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:45.471][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2026-02-28 16:01:45.472][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-02-28 16:01:45.473][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-02-28 16:01:45.474][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-02-28 16:01:45.475][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-02-28 16:01:45.475][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-02-28 16:01:45.476][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-02-28 16:01:45.477][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-02-28 16:01:45.478][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-02-28 16:01:45.479][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-02-28 16:01:45.480][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-02-28 16:01:45.481][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-02-28 16:01:45.482][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-02-28 16:01:45.485][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-02-28 16:01:45.486][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.487][FUN] Functions in observer BiodbConfig: [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[2026-02-28 16:01:45.488][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.491][FUN] Functions in observer BiodbConfig: [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[2026-02-28 16:01:45.492][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.493][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 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[2026-02-28 16:01:45.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.499][FUN] Functions in observer BiodbConfig: [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[2026-02-28 16:01:45.500][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.502][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.503][FUN] Functions in observer BiodbConfig: [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[2026-02-28 16:01:45.504][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 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[2026-02-28 16:01:45.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.507][FUN] Functions in observer BiodbConfig: [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[2026-02-28 16:01:45.508][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.510][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.511][FUN] Functions in observer BiodbConfig: [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[2026-02-28 16:01:45.512][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.516][FUN] Functions in observer BiodbConfig: [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[2026-02-28 16:01:45.516][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:45.521][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.524][FUN] Functions in observer BiodbConfig: [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[2026-02-28 16:01:45.525][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.528][FUN] Functions in observer BiodbConfig: [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[2026-02-28 16:01:45.529][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.532][FUN] Functions in observer BiodbConfig: [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[2026-02-28 16:01:45.533][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.536][FUN] Functions in observer BiodbConfig: [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[2026-02-28 16:01:45.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 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[2026-02-28 16:01:45.541][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.544][FUN] Functions in observer BiodbConfig: [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[2026-02-28 16:01:45.545][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.547][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.548][FUN] Functions in observer BiodbConfig: [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[2026-02-28 16:01:45.549][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 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[2026-02-28 16:01:45.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.552][FUN] Functions in observer BiodbConfig: [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[2026-02-28 16:01:45.553][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2026-02-28 16:01:45.558][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2026-02-28 16:01:45.559][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2026-02-28 16:01:45.560][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2026-02-28 16:01:45.562][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2026-02-28 16:01:45.563][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2026-02-28 16:01:45.564][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2026-02-28 16:01:45.565][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2026-02-28 16:01:45.567][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2026-02-28 16:01:45.568][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2026-02-28 16:01:45.577][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2026-02-28 16:01:45.580][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2026-02-28 16:01:45.582][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2026-02-28 16:01:45.583][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2026-02-28 16:01:45.585][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2026-02-28 16:01:45.586][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2026-02-28 16:01:45.588][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2026-02-28 16:01:45.589][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2026-02-28 16:01:45.591][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2026-02-28 16:01:45.592][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2026-02-28 16:01:45.594][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2026-02-28 16:01:45.595][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2026-02-28 16:01:45.597][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2026-02-28 16:01:45.598][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2026-02-28 16:01:45.600][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2026-02-28 16:01:45.601][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2026-02-28 16:01:45.621][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2026-02-28 16:01:45.623][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2026-02-28 16:01:45.624][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2026-02-28 16:01:45.626][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2026-02-28 16:01:45.627][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2026-02-28 16:01:45.629][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2026-02-28 16:01:45.630][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2026-02-28 16:01:45.632][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2026-02-28 16:01:45.633][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2026-02-28 16:01:45.634][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2026-02-28 16:01:45.636][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2026-02-28 16:01:45.637][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2026-02-28 16:01:45.639][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2026-02-28 16:01:45.640][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2026-02-28 16:01:45.642][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2026-02-28 16:01:45.643][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2026-02-28 16:01:45.645][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2026-02-28 16:01:45.646][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2026-02-28 16:01:45.648][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2026-02-28 16:01:45.649][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2026-02-28 16:01:45.650][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2026-02-28 16:01:45.652][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2026-02-28 16:01:45.653][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2026-02-28 16:01:45.655][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2026-02-28 16:01:45.656][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2026-02-28 16:01:45.657][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2026-02-28 16:01:45.659][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2026-02-28 16:01:45.660][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2026-02-28 16:01:45.662][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2026-02-28 16:01:45.663][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2026-02-28 16:01:45.665][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2026-02-28 16:01:45.666][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2026-02-28 16:01:45.667][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2026-02-28 16:01:45.669][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2026-02-28 16:01:45.670][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2026-02-28 16:01:45.672][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2026-02-28 16:01:45.673][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2026-02-28 16:01:45.674][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2026-02-28 16:01:45.676][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2026-02-28 16:01:45.677][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2026-02-28 16:01:45.679][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2026-02-28 16:01:45.680][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2026-02-28 16:01:45.681][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2026-02-28 16:01:45.683][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2026-02-28 16:01:45.684][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2026-02-28 16:01:45.686][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2026-02-28 16:01:45.687][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2026-02-28 16:01:45.688][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2026-02-28 16:01:45.690][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2026-02-28 16:01:45.691][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2026-02-28 16:01:45.693][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2026-02-28 16:01:45.694][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2026-02-28 16:01:45.695][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2026-02-28 16:01:45.697][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2026-02-28 16:01:45.698][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2026-02-28 16:01:45.700][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2026-02-28 16:01:45.701][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2026-02-28 16:01:45.708][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2026-02-28 16:01:45.709][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2026-02-28 16:01:45.713][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-02-28 16:01:45.714][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.715][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-02-28 16:01:45.721][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:45.723][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:45.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.726][FUN] Functions in observer BiodbConfig: [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[2026-02-28 16:01:45.727][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:45.729][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:45.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.733][FUN] Functions in observer BiodbConfig: [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[2026-02-28 16:01:45.734][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:45.735][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:45.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.739][FUN] Functions in observer BiodbConfig: [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[2026-02-28 16:01:45.740][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:45.742][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:45.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.745][FUN] Functions in observer BiodbConfig: [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[2026-02-28 16:01:45.746][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:45.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:45.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.751][FUN] Functions in observer BiodbConfig: [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[2026-02-28 16:01:45.752][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:45.754][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:45.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.758][FUN] Functions in observer BiodbConfig: [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[2026-02-28 16:01:45.758][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:45.760][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:45.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.762][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.764][FUN] Functions in observer BiodbConfig: [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[2026-02-28 16:01:45.765][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:45.766][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:45.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.770][FUN] Functions in observer BiodbConfig: [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[2026-02-28 16:01:45.770][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:45.772][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:45.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.775][FUN] Functions in observer BiodbConfig: [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[2026-02-28 16:01:45.776][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.777][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:45.778][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:45.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.781][FUN] Functions in observer BiodbConfig: [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[2026-02-28 16:01:45.782][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:45.784][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:45.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.790][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.791][FUN] Functions in observer BiodbConfig: [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[2026-02-28 16:01:45.792][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:45.794][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:45.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.795][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.797][FUN] Functions in observer BiodbConfig: [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[2026-02-28 16:01:45.798][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:45.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:45.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.803][FUN] Functions in observer BiodbConfig: [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[2026-02-28 16:01:45.804][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:45.805][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:45.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.809][FUN] Functions in observer BiodbConfig: [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[2026-02-28 16:01:45.809][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:45.811][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:45.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.814][FUN] Functions in observer BiodbConfig: [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[2026-02-28 16:01:45.815][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-02-28 16:01:45.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:45.817][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:45.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.818][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.820][FUN] Functions in observer BiodbConfig: [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[2026-02-28 16:01:45.822][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/definitions.yml".
biodb.DEBUG[2026-02-28 16:01:45.831][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2026-02-28 16:01:45.833][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-02-28 16:01:45.834][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2026-02-28 16:01:45.835][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:45.835][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-02-28 16:01:45.836][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:45.837][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-02-28 16:01:45.838][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:45.839][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2026-02-28 16:01:45.840][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2026-02-28 16:01:45.841][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-02-28 16:01:45.842][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:45.843][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2026-02-28 16:01:45.844][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-02-28 16:01:45.845][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2026-02-28 16:01:45.845][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2026-02-28 16:01:45.845][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2026-02-28 16:01:45.845][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2026-02-28 16:01:45.845][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2026-02-28 16:01:45.845][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2026-02-28 16:01:45.845][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2026-02-28 16:01:45.845][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2026-02-28 16:01:45.845][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2026-02-28 16:01:45.845][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2026-02-28 16:01:45.845][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2026-02-28 16:01:45.846][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2026-02-28 16:01:45.847][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-02-28 16:01:45.847][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-02-28 16:01:45.847][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-02-28 16:01:45.848][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2026-02-28 16:01:45.849][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-02-28 16:01:45.849][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-02-28 16:01:45.850][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-02-28 16:01:45.851][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-02-28 16:01:45.852][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-02-28 16:01:45.853][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-02-28 16:01:45.854][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2026-02-28 16:01:45.854][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2026-02-28 16:01:45.855][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-02-28 16:01:45.856][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-02-28 16:01:45.857][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2026-02-28 16:01:45.858][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2026-02-28 16:01:45.858][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2026-02-28 16:01:45.863][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2026-02-28 16:01:45.865][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2026-02-28 16:01:45.866][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2026-02-28 16:01:45.868][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2026-02-28 16:01:45.869][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2026-02-28 16:01:45.871][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2026-02-28 16:01:45.892][super$initialize] Initialize connector chebi.
biodb.DEBUG[2026-02-28 16:01:45.907][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2026-02-28 16:01:45.915][biodb::testThat]
biodb.INFO [2026-02-28 16:01:45.916][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2026-02-28 16:01:45.917][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-28 16:01:45.918][biodb::testThat]
biodb.TRACE[2026-02-28 16:01:45.921][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2026-02-28 16:01:45.923][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-02-28 16:01:45.926][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-02-28 16:01:45.934][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-02-28 16:01:45.935][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:45.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:45.948][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:45.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:45.950][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:45.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-02-28 16:01:45.960][ef$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:45.961][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:45.962][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.963][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.964][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:45.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:45.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:45.988][ef$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:45.989][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:45.990][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:45.991][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.015][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:46.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:46.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.019][ef$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:46.020][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:46.021][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.022][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.023][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:46.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:46.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.027][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:46.028][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:46.029][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.030][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.031][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:46.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:46.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.034][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.035][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.036][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.037][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.038][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.042][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.043][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.044][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.045][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.046][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.050][ef$get] Asked field names are: mass.
biodb.TRACE[2026-02-28 16:01:46.051][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.052][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.052][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.054][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-02-28 16:01:46.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.057][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.058][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.059][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.060][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.061][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.065][ef$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:46.066][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:46.067][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.068][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.069][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:46.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:46.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.073][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-02-28 16:01:46.074][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:46.075][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.075][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.077][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-02-28 16:01:46.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:46.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.080][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:46.081][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:46.082][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.083][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.084][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:46.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:46.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.092][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.099][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.102][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.106][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.110][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.113][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.147][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.154][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-02-28 16:01:46.158][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2026-02-28 16:01:46.160][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:46.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:46.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.164][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:46.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:46.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.189][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.193][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.197][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.200][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.204][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-02-28 16:01:46.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-02-28 16:01:46.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.250][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-02-28 16:01:46.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-02-28 16:01:46.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.254][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-02-28 16:01:46.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-02-28 16:01:46.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.258][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-02-28 16:01:46.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-02-28 16:01:46.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.278][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.285][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.302][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.309][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.313][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.317][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.334][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.337][ef$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.338][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.339][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.340][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.352][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.355][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.359][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.363][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.364][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.365][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.365][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.366][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.381][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:46.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:46.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.385][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:46.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:46.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.389][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:46.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:46.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.393][ef$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:46.394][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:46.395][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.396][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.397][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:46.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:46.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.408][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:46.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:46.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.411][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:46.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:46.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.415][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:46.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:46.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.419][ef$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:46.420][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:46.421][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.422][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.423][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:46.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:46.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.433][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.437][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.441][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.444][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.445][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.446][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.447][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.448][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.458][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.462][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.466][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.469][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.470][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.471][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.472][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.473][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.483][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:46.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:46.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.487][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:46.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:46.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.491][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:46.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:46.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.495][ef$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:46.495][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:46.496][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.497][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.502][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:46.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:46.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.513][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-28 16:01:46.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:46.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.516][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-28 16:01:46.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:46.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.520][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-28 16:01:46.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:46.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.524][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-28 16:01:46.525][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:46.525][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.526][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.527][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-28 16:01:46.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:46.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.538][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.541][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.545][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.549][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.550][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.551][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.552][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.552][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.563][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:46.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:46.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.566][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:46.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:46.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.570][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:46.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:46.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.574][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:46.575][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:46.576][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.577][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.577][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:46.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:46.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.588][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.592][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.595][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.599][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.600][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.601][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.602][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.603][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.613][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:46.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:46.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.616][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:46.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:46.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.620][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:46.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:46.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.627][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:46.628][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:46.629][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.630][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.631][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:46.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:46.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.641][ef$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.642][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.643][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.644][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.648][ef$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:46.649][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:46.650][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.651][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.655][ef$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:46.656][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:46.656][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.657][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.661][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:46.662][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:46.663][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.664][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.668][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.669][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.670][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.670][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.674][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.675][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.676][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.677][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.681][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.682][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.683][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.683][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.687][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.688][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.689][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.690][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.694][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-28 16:01:46.695][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:46.696][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.696][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.700][ef$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:46.701][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:46.702][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.703][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.707][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:46.708][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:46.709][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.709][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.725][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-2528-content.xml".
biodb.DEBUG[2026-02-28 16:01:46.761][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-02-28 16:01:46.762][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-02-28 16:01:46.764][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-02-28 16:01:46.764][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:46.765][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:46.769][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:46.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:46.771][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:46.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-02-28 16:01:46.774][ef$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.775][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.776][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.776][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.778][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.796][ef$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:46.797][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:46.798][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.799][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.800][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:46.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:46.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.804][ef$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:46.805][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:46.806][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.807][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.808][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:46.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:46.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.812][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:46.813][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:46.814][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.815][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.816][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:46.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:46.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.820][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.821][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.822][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.823][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.824][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.827][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.828][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.829][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.830][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.831][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:46.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.835][ef$get] Asked field names are: mass.
biodb.TRACE[2026-02-28 16:01:46.836][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.837][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.838][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.839][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-02-28 16:01:46.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.843][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.844][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.844][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.845][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.846][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:46.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.850][ef$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:46.851][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:46.852][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.853][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.854][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:46.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:46.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.862][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-02-28 16:01:46.863][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:46.864][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.864][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.866][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-02-28 16:01:46.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:46.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.869][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:46.870][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:46.871][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.872][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.873][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:46.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:46.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.881][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.884][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.888][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.892][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.895][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.899][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.903][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.906][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-02-28 16:01:46.914][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 2528.
biodb.TRACE[2026-02-28 16:01:46.933][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:46.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:46.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.937][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:46.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:46.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.941][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.944][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:46.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.948][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.952][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:46.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.955][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-02-28 16:01:46.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-02-28 16:01:46.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.959][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-02-28 16:01:46.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-02-28 16:01:46.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.963][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-02-28 16:01:46.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-02-28 16:01:46.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.966][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-02-28 16:01:46.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-02-28 16:01:46.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.971][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.978][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:46.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.988][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:46.996][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:46.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:46.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:46.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.004][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.008][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.012][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.019][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.037][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.041][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.045][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.048][ef$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.049][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.050][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.051][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.063][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.066][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.070][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.074][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.075][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.075][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.076][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.077][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.088][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:47.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:47.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.091][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:47.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:47.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.095][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:47.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:47.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.099][ef$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:47.100][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:47.104][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.105][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.106][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:47.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:47.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.116][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:47.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:47.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.120][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:47.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:47.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.124][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:47.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:47.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.127][ef$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:47.128][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:47.129][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.130][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.131][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:47.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:47.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.141][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-02-28 16:01:47.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.145][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.149][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.152][ef$get] Asked field names are: mass.
biodb.TRACE[2026-02-28 16:01:47.153][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.154][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.155][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.156][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-02-28 16:01:47.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.166][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.170][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.174][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.177][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.178][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.179][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.180][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.181][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.191][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.195][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.199][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.202][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.203][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.204][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.205][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.206][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.216][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:47.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:47.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.220][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:47.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:47.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.227][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:47.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:47.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.231][ef$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:47.232][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:47.233][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.233][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.234][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:47.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:47.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.245][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-28 16:01:47.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:47.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.248][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-28 16:01:47.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:47.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.252][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-28 16:01:47.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:47.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.256][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-28 16:01:47.257][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:47.258][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.259][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.259][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-28 16:01:47.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:47.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.270][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.273][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.277][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.281][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.282][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.283][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.283][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.284][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.295][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:47.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:47.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.298][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:47.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:47.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.302][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:47.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:47.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.306][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:47.307][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:47.307][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.308][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.309][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:47.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:47.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.320][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.323][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.327][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.331][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.332][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.333][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.333][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.334][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.345][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:47.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:47.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.352][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:47.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:47.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.356][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:47.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:47.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.359][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:47.360][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:47.361][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.362][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.363][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:47.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:47.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.373][ef$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.374][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.375][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.376][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.380][ef$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:47.381][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:47.382][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.383][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.387][ef$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:47.388][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:47.388][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.389][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.393][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:47.394][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:47.395][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.396][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.400][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.401][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.402][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.402][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.406][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.407][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.408][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.409][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.413][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.414][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.415][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.416][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.419][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.420][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.421][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.422][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.426][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-28 16:01:47.427][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:47.428][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.429][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.432][ef$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:47.433][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:47.434][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.435][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.439][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:47.440][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:47.441][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.442][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.446][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-7799-content.xml".
biodb.DEBUG[2026-02-28 16:01:47.447][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-02-28 16:01:47.448][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-02-28 16:01:47.450][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-02-28 16:01:47.451][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:47.451][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:47.455][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:47.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:47.459][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:47.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-02-28 16:01:47.462][ef$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.463][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.464][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.465][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.470][ef$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:47.471][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:47.472][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.477][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.478][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:47.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:47.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.482][ef$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:47.483][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:47.484][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.485][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.486][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:47.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:47.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.490][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:47.491][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:47.492][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.492][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.494][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:47.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:47.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.497][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.498][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.499][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.500][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.501][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.505][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.506][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.507][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.508][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.509][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.513][ef$get] Asked field names are: mass.
biodb.TRACE[2026-02-28 16:01:47.514][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.515][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.516][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.517][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-02-28 16:01:47.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.521][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.522][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.523][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.524][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.525][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.529][ef$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:47.530][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:47.531][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.531][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.533][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:47.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:47.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.536][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-02-28 16:01:47.537][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:47.538][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.539][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.540][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-02-28 16:01:47.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:47.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.544][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:47.545][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:47.546][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.547][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.549][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:47.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:47.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.553][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.557][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.561][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.565][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.569][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.584][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.588][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-02-28 16:01:47.592][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 7799.
biodb.TRACE[2026-02-28 16:01:47.594][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:47.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:47.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.597][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:47.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:47.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.601][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.608][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.612][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.616][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.619][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-02-28 16:01:47.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-02-28 16:01:47.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.623][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-02-28 16:01:47.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-02-28 16:01:47.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.627][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-02-28 16:01:47.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-02-28 16:01:47.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.630][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-02-28 16:01:47.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-02-28 16:01:47.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.635][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.642][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.649][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.653][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.656][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.661][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.665][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.669][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.673][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.676][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.680][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:01:47.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.692][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.696][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.700][ef$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.701][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.702][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.702][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.703][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.714][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:47.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:47.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.717][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:47.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:47.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.721][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:47.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:47.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.725][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:47.726][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:47.727][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.728][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.729][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:47.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:47.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.743][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:47.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:47.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.746][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:47.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:47.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.750][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:47.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:47.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.754][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:47.755][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:47.756][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.757][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.758][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:47.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:47.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.768][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.772][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.775][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.779][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.780][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.781][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.782][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.783][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:47.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.793][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.797][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.800][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.804][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.805][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.806][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.807][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.808][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:47.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.818][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.822][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.825][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.829][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.830][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.831][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.832][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.833][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:47.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.843][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.847][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.851][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.858][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.859][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.860][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.861][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.862][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:47.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.873][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:47.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:47.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.876][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:47.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:47.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.880][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:47.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:47.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.884][ef$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:47.885][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:47.886][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.887][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.888][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:47.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:47.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.899][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-28 16:01:47.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:47.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.902][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-28 16:01:47.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:47.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.906][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-28 16:01:47.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:47.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.910][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-28 16:01:47.911][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:47.912][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.913][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.913][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-28 16:01:47.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:47.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.924][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:47.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:47.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.928][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:47.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:47.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.931][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:47.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:47.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.935][ef$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:47.936][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:47.937][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.938][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.939][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:47.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:47.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.949][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:47.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:47.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.953][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:47.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:47.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.957][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:47.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:47.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.960][ef$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:47.961][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:47.962][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.963][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.964][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:47.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:47.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.974][ef$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:01:47.975][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:01:47.976][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.981][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.985][ef$get] Asked field names are: charge.
biodb.TRACE[2026-02-28 16:01:47.986][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-02-28 16:01:47.987][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.988][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.992][ef$get] Asked field names are: formula.
biodb.TRACE[2026-02-28 16:01:47.993][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-02-28 16:01:47.993][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:47.994][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:47.998][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-02-28 16:01:47.999][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-02-28 16:01:48.000][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:48.001][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:48.005][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-02-28 16:01:48.006][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-02-28 16:01:48.007][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:48.008][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:48.011][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:48.012][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-02-28 16:01:48.013][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:48.014][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:48.018][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:48.019][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-02-28 16:01:48.020][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:48.021][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:48.025][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:48.026][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:01:48.026][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:48.027][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:48.031][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-02-28 16:01:48.032][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-02-28 16:01:48.033][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:48.034][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:48.038][ef$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:01:48.039][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:01:48.040][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:48.040][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:01:48.044][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-02-28 16:01:48.045][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-02-28 16:01:48.046][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:01:48.047][ef$get] fields variable is a list.
biodb.INFO [2026-02-28 16:01:48.054][biodb::testThat]
biodb.INFO [2026-02-28 16:01:48.055][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2026-02-28 16:01:48.055][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-28 16:01:48.056][biodb::testThat]
biodb.DEBUG[2026-02-28 16:01:48.058][private$loadEntries] Creating entries from ids [3]: "15440, 2528, 7799".
biodb.DEBUG[2026-02-28 16:01:48.061][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2026-02-28 16:01:48.064][cch$loadContents] Load 3 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2026-02-28 16:01:48.065][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2026-02-28 16:01:48.066][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2026-02-28 16:01:48.067][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2026-02-28 16:01:48.068][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2026-02-28 16:01:48.074][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-02-28 16:01:48.075][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:01:48.076][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:01:48.080][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:01:48.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:01:48.081][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:01:48.082][FUN] Functions in observer 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[2026-02-28 16:01:48.084][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
fscache.INFO [2026-02-28 16:01:48.107][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2026-02-28 16:01:48.108][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:01:48.109][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:01:48.111][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-02-28 16:02:01.225][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[2026-02-28 16:02:01.227][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:01.230][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[2026-02-28 16:02:01.232][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 [2026-02-28 16:02:01.737][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:01.739][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:01.742][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:01.745][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-02-28 16:02:02.071][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[2026-02-28 16:02:02.073][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:02.075][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[2026-02-28 16:02:02.077][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 [2026-02-28 16:02:02.571][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:02.573][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:02.576][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:02.579][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-02-28 16:02:02.906][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[2026-02-28 16:02:02.908][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:02.910][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[2026-02-28 16:02:02.912][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 [2026-02-28 16:02:03.407][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:03.409][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:03.412][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:03.414][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-02-28 16:02:03.767][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[2026-02-28 16:02:03.774][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:03.778][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[2026-02-28 16:02:03.781][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 [2026-02-28 16:02:04.281][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:04.284][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:04.288][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:04.293][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-02-28 16:02:04.634][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[2026-02-28 16:02:04.637][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:04.640][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-28 16:02:04.643][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 [2026-02-28 16:02:05.142][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:05.145][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:05.148][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:05.153][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-02-28 16:02:05.491][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[2026-02-28 16:02:05.493][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:05.495][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[2026-02-28 16:02:05.498][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 [2026-02-28 16:02:05.996][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:05.999][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:06.002][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:06.005][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-02-28 16:02:06.333][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[2026-02-28 16:02:06.336][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:06.338][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[2026-02-28 16:02:06.341][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 [2026-02-28 16:02:06.839][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:06.841][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:06.844][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:06.847][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-02-28 16:02:07.181][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[2026-02-28 16:02:07.183][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:07.186][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[2026-02-28 16:02:07.188][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 [2026-02-28 16:02:07.790][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:07.792][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:07.795][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:07.798][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-02-28 16:02:08.133][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[2026-02-28 16:02:08.136][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:08.139][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[2026-02-28 16:02:08.142][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 [2026-02-28 16:02:08.638][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:08.642][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:08.645][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:08.649][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-02-28 16:02:08.986][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[2026-02-28 16:02:08.988][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:08.991][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[2026-02-28 16:02:08.994][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-02-28 16:02:09.492][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
biodb.DEBUG[2026-02-28 16:02:09.497][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-02-28 16:02:09.499][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:02:09.502][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:02:09.516][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:02:09.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:02:09.521][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:02:09.523][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2026-02-28 16:02:09.555][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
fscache.INFO [2026-02-28 16:02:09.628][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2026-02-28 16:02:09.644][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:09.645][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:09.647][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-02-28 16:02:09.940][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-02-28 16:02:09.942][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:09.944][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-28 16:02:09.946][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-02-28 16:02:10.442][private$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[2026-02-28 16:02:10.444][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:10.447][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:10.450][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-02-28 16:02:10.778][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-02-28 16:02:10.781][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:10.783][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-28 16:02:10.785][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-02-28 16:02:11.278][private$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[2026-02-28 16:02:11.281][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:11.283][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:11.286][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-02-28 16:02:11.619][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-02-28 16:02:11.621][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:11.623][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-28 16:02:11.626][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-02-28 16:02:12.119][private$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[2026-02-28 16:02:12.122][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:12.124][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:12.127][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-02-28 16:02:12.458][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-02-28 16:02:12.460][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:12.463][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-28 16:02:12.465][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-02-28 16:02:12.982][private$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[2026-02-28 16:02:12.989][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:12.992][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:12.997][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-02-28 16:02:13.382][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-02-28 16:02:13.384][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:13.387][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-28 16:02:13.390][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-02-28 16:02:13.886][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:13.889][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:13.891][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:13.895][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-02-28 16:02:14.229][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-02-28 16:02:14.231][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:14.234][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-28 16:02:14.236][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-02-28 16:02:14.732][private$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[2026-02-28 16:02:14.734][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:14.737][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:14.740][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-02-28 16:02:15.069][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-02-28 16:02:15.072][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:15.074][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-28 16:02:15.076][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-02-28 16:02:15.573][private$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[2026-02-28 16:02:15.575][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:15.578][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:15.581][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-02-28 16:02:15.908][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-02-28 16:02:15.910][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:15.979][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-28 16:02:15.981][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-02-28 16:02:16.460][private$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[2026-02-28 16:02:16.463][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:16.465][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:16.469][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-02-28 16:02:16.798][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-02-28 16:02:16.800][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:16.803][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-28 16:02:16.805][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-02-28 16:02:17.298][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:17.301][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:17.303][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:17.306][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-02-28 16:02:17.641][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-02-28 16:02:17.643][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:17.646][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-28 16:02:17.648][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-02-28 16:02:18.143][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
biodb.DEBUG[2026-02-28 16:02:18.146][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-02-28 16:02:18.149][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:02:18.151][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:02:18.163][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:02:18.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:02:18.167][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:02:18.170][FUN] Functions in observer 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[2026-02-28 16:02:18.172][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
fscache.INFO [2026-02-28 16:02:18.178][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2026-02-28 16:02:18.181][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:18.183][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:18.187][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-02-28 16:02:18.501][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[2026-02-28 16:02:18.503][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:18.506][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[2026-02-28 16:02:18.509][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 [2026-02-28 16:02:19.004][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:19.007][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:19.010][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:19.014][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-02-28 16:02:19.342][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[2026-02-28 16:02:19.344][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:19.345][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[2026-02-28 16:02:19.346][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 [2026-02-28 16:02:19.801][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:19.803][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:19.804][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:19.806][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-02-28 16:02:20.102][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[2026-02-28 16:02:20.103][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:20.104][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[2026-02-28 16:02:20.105][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 [2026-02-28 16:02:20.563][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:20.564][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:20.565][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:20.567][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-02-28 16:02:20.860][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-02-28 16:02:20.861][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:20.863][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-02-28 16:02:20.864][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 [2026-02-28 16:02:21.318][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:21.319][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:21.320][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:21.322][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-02-28 16:02:21.614][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[2026-02-28 16:02:21.616][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:21.618][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[2026-02-28 16:02:21.619][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 [2026-02-28 16:02:22.112][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:22.115][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:22.117][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:22.121][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-02-28 16:02:22.449][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[2026-02-28 16:02:22.452][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:22.455][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[2026-02-28 16:02:22.465][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 [2026-02-28 16:02:22.969][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:22.973][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:22.976][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:22.982][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-02-28 16:02:23.307][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[2026-02-28 16:02:23.309][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:23.312][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[2026-02-28 16:02:23.315][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 [2026-02-28 16:02:23.811][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:23.814][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:23.817][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:23.820][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-02-28 16:02:24.153][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[2026-02-28 16:02:24.155][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:24.158][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[2026-02-28 16:02:24.160][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 [2026-02-28 16:02:24.506][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:24.509][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:24.511][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:24.514][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-02-28 16:02:24.844][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[2026-02-28 16:02:24.846][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:24.849][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[2026-02-28 16:02:24.851][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 [2026-02-28 16:02:25.346][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-02-28 16:02:25.349][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-02-28 16:02:25.351][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-02-28 16:02:25.355][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-02-28 16:02:25.687][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[2026-02-28 16:02:25.688][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-02-28 16:02:25.690][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[2026-02-28 16:02:25.692][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 [2026-02-28 16:02:26.185][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
fscache.INFO [2026-02-28 16:02:26.190][cch$saveContents] Save 3 contents to /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2026-02-28 16:02:26.193][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2026-02-28 16:02:26.197][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2026-02-28 16:02:26.267][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2026-02-28 16:02:26.270][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-02-28 16:02:26.271][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:02:26.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:02:26.277][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:02:26.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:02:26.279][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:02:26.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-02-28 16:02:26.282][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:02:26.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:02:26.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:26.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:26.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:02:26.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:02:26.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:26.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:26.290][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:02:26.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:02:26.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:26.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-02-28 16:02:26.294][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-02-28 16:02:26.295][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:02:26.296][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:02:26.301][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:02:26.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:02:26.303][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:02:26.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-02-28 16:02:26.305][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:02:26.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:02:26.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:26.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:26.309][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:02:26.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:02:26.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:26.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:26.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:02:26.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:02:26.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:26.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-02-28 16:02:26.318][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-02-28 16:02:26.319][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:02:26.320][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:02:26.324][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:02:26.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:02:26.326][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:02:26.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-02-28 16:02:26.329][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:02:26.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:02:26.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:26.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:26.333][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-02-28 16:02:26.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-02-28 16:02:26.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:26.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:26.337][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:02:26.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:02:26.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:26.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:26.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:02:26.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:02:26.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:26.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:26.345][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:02:26.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:02:26.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:26.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:26.350][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:02:26.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:02:26.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:26.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:26.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:02:26.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:02:26.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:26.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:26.358][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:02:26.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:02:26.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:26.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:26.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:02:26.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:02:26.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:26.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:26.365][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:02:26.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:02:26.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:26.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:26.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:02:26.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:02:26.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:26.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:26.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:02:26.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:02:26.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:26.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:26.377][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:02:26.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:02:26.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:26.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:26.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:02:26.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:02:26.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:26.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:26.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:02:26.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:02:26.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:26.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:26.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:02:26.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:02:26.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:26.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:26.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:02:26.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:02:26.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:26.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:26.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-02-28 16:02:26.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-02-28 16:02:26.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:26.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-02-28 16:02:26.403][self$createEntryFromContent] Accession numbers: NA, NA, NA.
biodb.DEBUG[2026-02-28 16:02:26.404][self$createEntryFromContent] Found 3 entry/ies without an accession number. Set it/them to NULL.
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-02-28 16:02:26.538][biodb::testThat]
biodb.INFO [2026-02-28 16:02:26.539][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2026-02-28 16:02:26.540][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-28 16:02:26.541][biodb::testThat]
biodb.TRACE[2026-02-28 16:02:26.544][ef$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:02:26.545][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:02:26.546][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:26.547][ef$get] fields variable is a list.
biodb.DEBUG[2026-02-28 16:02:26.548][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 [2026-02-28 16:02:26.938][biodb::testThat]
biodb.INFO [2026-02-28 16:02:26.939][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2026-02-28 16:02:26.940][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-28 16:02:26.941][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-02-28 16:02:27.031][biodb::testThat]
biodb.INFO [2026-02-28 16:02:27.032][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2026-02-28 16:02:27.033][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-28 16:02:27.034][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-02-28 16:02:27.134][biodb::testThat]
biodb.INFO [2026-02-28 16:02:27.136][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2026-02-28 16:02:27.137][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-28 16:02:27.138][biodb::testThat]
biodb.INFO [2026-02-28 16:02:27.147][biodb::testThat]
biodb.INFO [2026-02-28 16:02:27.148][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2026-02-28 16:02:27.149][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-28 16:02:27.150][biodb::testThat]
biodb.INFO [2026-02-28 16:02:27.158][biodb::testThat]
biodb.INFO [2026-02-28 16:02:27.159][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2026-02-28 16:02:27.160][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-28 16:02:27.161][biodb::testThat]
biodb.DEBUG[2026-02-28 16:02:27.165][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2026-02-28 16:02:27.638][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2026-02-28 16:02:27.973][biodb::testThat]
biodb.INFO [2026-02-28 16:02:27.975][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2026-02-28 16:02:27.977][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-28 16:02:27.978][biodb::testThat]
biodb.TRACE[2026-02-28 16:02:28.020][ef$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:02:28.022][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:02:28.023][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:28.024][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:28.025][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:02:28.026][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:02:28.027][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:28.028][ef$get] fields variable is a list.
biodb.INFO [2026-02-28 16:02:28.029][biodb::testThat]
biodb.INFO [2026-02-28 16:02:28.030][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2026-02-28 16:02:28.031][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-28 16:02:28.032][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-02-28 16:02:28.122][biodb::testThat]
biodb.INFO [2026-02-28 16:02:28.123][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2026-02-28 16:02:28.124][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-28 16:02:28.125][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-02-28 16:02:28.188][biodb::testThat]
biodb.INFO [2026-02-28 16:02:28.190][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2026-02-28 16:02:28.191][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-28 16:02:28.192][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-02-28 16:02:28.240][biodb::testThat]
biodb.INFO [2026-02-28 16:02:28.241][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2026-02-28 16:02:28.242][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-28 16:02:28.243][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.TRACE[2026-02-28 16:02:28.288][ef$get] Asked field names are: name.
biodb.TRACE[2026-02-28 16:02:28.289][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-02-28 16:02:28.290][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:28.291][ef$get] fields variable is a list.
biodb.TRACE[2026-02-28 16:02:28.292][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:02:28.293][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-02-28 16:02:28.294][ef$get] 1 fields were returned.
biodb.TRACE[2026-02-28 16:02:28.295][ef$get] fields variable is a list.
biodb.INFO [2026-02-28 16:02:28.297][biodb::testThat]
biodb.INFO [2026-02-28 16:02:28.298][biodb::testThat] Running test function  test.annotateMzValues_real_values  (" annotateMzValues() works correctly with real values. ").
biodb.INFO [2026-02-28 16:02:28.299][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-28 16:02:28.300][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-02-28 16:02:28.347][biodb::testThat]
biodb.INFO [2026-02-28 16:02:28.348][biodb::testThat] Running test function  test_annotateMzValues_additional_fields  (" Additional fields are accepted in annotateMzValues() ").
biodb.INFO [2026-02-28 16:02:28.349][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-02-28 16:02:28.350][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-02-28 16:02:28.408][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2026-02-28 16:02:28.409][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2026-02-28 16:02:28.410][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2026-02-28 16:02:28.411][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-02-28 16:02:28.412][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-02-28 16:02:28.414][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2026-02-28 16:02:28.415][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-02-28 16:02:28.416][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2026-02-28 16:02:28.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ 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)