Back to Long Tests report for BioC 3.22

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

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

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

CHECK results for biodbChebi on merida1

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: /Library/Frameworks/R.framework/Resources/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbChebi_1.16.0.tar.gz
StartedAt: 2026-03-14 16:01:15 -0400 (Sat, 14 Mar 2026)
EndedAt: 2026-03-14 16:02:41 -0400 (Sat, 14 Mar 2026)
EllapsedTime: 86.0 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-apple-darwin20

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> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2026-03-14 16:02:08.181][biodb::testContext]
biodb.INFO [2026-03-14 16:02:08.185][biodb::testContext] ********************************************************************************
biodb.INFO [2026-03-14 16:02:08.186][biodb::testContext] Test context - Generic long tests
biodb.INFO [2026-03-14 16:02:08.188][biodb::testContext] ********************************************************************************
biodb.INFO [2026-03-14 16:02:08.189][biodb::testContext]
biodb.INFO [2026-03-14 16:02:08.196][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2026-03-14 16:02:08.199][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2026-03-14 16:02:08.207][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-03-14 16:02:08.208][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2026-03-14 16:02:08.210][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2026-03-14 16:02:08.211][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.215][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2026-03-14 16:02:08.239][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2026-03-14 16:02:08.240][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.244][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2026-03-14 16:02:08.245][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2026-03-14 16:02:08.247][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.250][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2026-03-14 16:02:08.251][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2026-03-14 16:02:08.253][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2026-03-14 16:02:08.254][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.257][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2026-03-14 16:02:08.259][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2026-03-14 16:02:08.260][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2026-03-14 16:02:08.261][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.265][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2026-03-14 16:02:08.266][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2026-03-14 16:02:08.267][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.271][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2026-03-14 16:02:08.272][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2026-03-14 16:02:08.273][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2026-03-14 16:02:08.275][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.278][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2026-03-14 16:02:08.280][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2026-03-14 16:02:08.281][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.284][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2026-03-14 16:02:08.286][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2026-03-14 16:02:08.287][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2026-03-14 16:02:08.288][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.291][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.292][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2026-03-14 16:02:08.293][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2026-03-14 16:02:08.294][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2026-03-14 16:02:08.296][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2026-03-14 16:02:08.297][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2026-03-14 16:02:08.298][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2026-03-14 16:02:08.300][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.303][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2026-03-14 16:02:08.305][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2026-03-14 16:02:08.306][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.309][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2026-03-14 16:02:08.311][self$set] Set key entries.sep to "|".
biodb.DEBUG[2026-03-14 16:02:08.312][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.316][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2026-03-14 16:02:08.317][self$set] Set key offline to FALSE.
biodb.DEBUG[2026-03-14 16:02:08.318][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.320][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.322][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2026-03-14 16:02:08.328][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2026-03-14 16:02:08.330][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2026-03-14 16:02:08.331][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.334][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2026-03-14 16:02:08.335][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2026-03-14 16:02:08.346][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2026-03-14 16:02:08.348][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.351][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2026-03-14 16:02:08.352][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2026-03-14 16:02:08.354][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2026-03-14 16:02:08.355][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.361][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2026-03-14 16:02:08.404][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-03-14 16:02:08.426][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2026-03-14 16:02:08.427][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-03-14 16:02:08.428][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-03-14 16:02:08.430][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-03-14 16:02:08.431][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-03-14 16:02:08.432][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-03-14 16:02:08.433][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-03-14 16:02:08.435][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2026-03-14 16:02:08.436][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-03-14 16:02:08.437][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-03-14 16:02:08.439][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2026-03-14 16:02:08.440][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-03-14 16:02:08.441][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-03-14 16:02:08.442][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-03-14 16:02:08.444][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-03-14 16:02:08.444][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-03-14 16:02:08.444][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-03-14 16:02:08.444][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2026-03-14 16:02:08.444][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2026-03-14 16:02:08.445][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-03-14 16:02:08.446][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-14 16:02:08.448][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-14 16:02:08.449][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-03-14 16:02:08.450][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-14 16:02:08.451][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-14 16:02:08.452][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-03-14 16:02:08.454][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-03-14 16:02:08.455][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-03-14 16:02:08.456][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-03-14 16:02:08.457][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-03-14 16:02:08.458][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-03-14 16:02:08.460][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2026-03-14 16:02:08.462][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-03-14 16:02:08.463][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2026-03-14 16:02:08.465][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-03-14 16:02:08.466][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-03-14 16:02:08.467][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-03-14 16:02:08.468][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-03-14 16:02:08.470][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-03-14 16:02:08.471][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-03-14 16:02:08.472][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2026-03-14 16:02:08.473][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-03-14 16:02:08.475][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-03-14 16:02:08.476][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2026-03-14 16:02:08.477][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-03-14 16:02:08.478][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-03-14 16:02:08.480][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-03-14 16:02:08.481][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-03-14 16:02:08.481][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-03-14 16:02:08.481][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-03-14 16:02:08.481][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2026-03-14 16:02:08.481][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2026-03-14 16:02:08.482][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-03-14 16:02:08.484][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-14 16:02:08.485][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-14 16:02:08.486][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-03-14 16:02:08.487][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-14 16:02:08.488][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-14 16:02:08.489][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-03-14 16:02:08.491][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-03-14 16:02:08.492][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-03-14 16:02:08.493][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-03-14 16:02:08.494][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-03-14 16:02:08.495][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-03-14 16:02:08.497][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2026-03-14 16:02:08.499][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2026-03-14 16:02:08.500][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2026-03-14 16:02:08.502][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-03-14 16:02:08.503][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-03-14 16:02:08.504][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-03-14 16:02:08.505][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-03-14 16:02:08.507][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-03-14 16:02:08.508][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-03-14 16:02:08.509][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2026-03-14 16:02:08.510][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-03-14 16:02:08.512][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2026-03-14 16:02:08.513][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2026-03-14 16:02:08.514][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-03-14 16:02:08.515][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-03-14 16:02:08.516][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-03-14 16:02:08.518][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2026-03-14 16:02:08.519][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-03-14 16:02:08.520][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-14 16:02:08.521][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-14 16:02:08.523][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-03-14 16:02:08.524][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-14 16:02:08.525][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-14 16:02:08.527][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-03-14 16:02:08.528][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-03-14 16:02:08.529][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-03-14 16:02:08.530][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-03-14 16:02:08.531][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-03-14 16:02:08.533][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-03-14 16:02:08.534][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2026-03-14 16:02:08.536][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2026-03-14 16:02:08.538][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2026-03-14 16:02:08.539][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-03-14 16:02:08.540][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-03-14 16:02:08.541][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-03-14 16:02:08.543][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-03-14 16:02:08.544][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2026-03-14 16:02:08.545][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2026-03-14 16:02:08.546][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2026-03-14 16:02:08.548][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-03-14 16:02:08.549][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2026-03-14 16:02:08.550][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2026-03-14 16:02:08.551][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-03-14 16:02:08.553][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2026-03-14 16:02:08.554][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2026-03-14 16:02:08.555][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2026-03-14 16:02:08.556][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2026-03-14 16:02:08.557][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-14 16:02:08.559][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-14 16:02:08.560][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-03-14 16:02:08.561][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-14 16:02:08.562][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-14 16:02:08.563][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-03-14 16:02:08.565][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2026-03-14 16:02:08.566][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-03-14 16:02:08.567][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-03-14 16:02:08.568][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2026-03-14 16:02:08.569][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2026-03-14 16:02:08.578][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-03-14 16:02:08.580][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.582][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:08.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:08.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.588][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:08.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:08.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.593][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:08.596][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:08.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.599][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:08.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:08.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.605][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:08.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:08.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:08.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:08.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.616][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:08.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:08.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:08.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:08.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.627][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:08.629][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:08.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.632][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.633][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:08.635][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:08.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.638][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:08.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:08.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.644][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:08.646][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:08.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.648][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.650][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:08.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:08.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.655][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:08.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:08.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.661][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:08.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:08.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.666][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:08.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:08.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.672][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2026-03-14 16:02:08.677][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2026-03-14 16:02:08.678][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2026-03-14 16:02:08.680][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2026-03-14 16:02:08.682][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2026-03-14 16:02:08.684][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2026-03-14 16:02:08.685][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2026-03-14 16:02:08.687][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2026-03-14 16:02:08.689][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2026-03-14 16:02:08.690][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2026-03-14 16:02:08.692][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2026-03-14 16:02:08.694][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2026-03-14 16:02:08.696][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2026-03-14 16:02:08.697][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2026-03-14 16:02:08.699][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2026-03-14 16:02:08.701][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2026-03-14 16:02:08.702][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2026-03-14 16:02:08.704][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2026-03-14 16:02:08.706][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2026-03-14 16:02:08.708][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2026-03-14 16:02:08.710][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2026-03-14 16:02:08.711][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2026-03-14 16:02:08.713][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2026-03-14 16:02:08.715][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2026-03-14 16:02:08.717][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2026-03-14 16:02:08.718][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2026-03-14 16:02:08.720][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2026-03-14 16:02:08.722][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2026-03-14 16:02:08.724][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2026-03-14 16:02:08.725][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2026-03-14 16:02:08.727][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2026-03-14 16:02:08.729][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2026-03-14 16:02:08.731][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2026-03-14 16:02:08.732][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2026-03-14 16:02:08.734][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2026-03-14 16:02:08.736][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2026-03-14 16:02:08.737][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2026-03-14 16:02:08.739][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2026-03-14 16:02:08.741][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2026-03-14 16:02:08.743][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2026-03-14 16:02:08.744][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2026-03-14 16:02:08.746][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2026-03-14 16:02:08.748][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2026-03-14 16:02:08.750][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2026-03-14 16:02:08.752][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2026-03-14 16:02:08.753][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2026-03-14 16:02:08.755][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2026-03-14 16:02:08.757][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2026-03-14 16:02:08.759][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2026-03-14 16:02:08.761][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2026-03-14 16:02:08.762][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2026-03-14 16:02:08.764][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2026-03-14 16:02:08.766][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2026-03-14 16:02:08.767][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2026-03-14 16:02:08.769][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2026-03-14 16:02:08.771][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2026-03-14 16:02:08.773][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2026-03-14 16:02:08.774][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2026-03-14 16:02:08.776][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2026-03-14 16:02:08.778][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2026-03-14 16:02:08.780][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2026-03-14 16:02:08.781][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2026-03-14 16:02:08.783][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2026-03-14 16:02:08.785][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2026-03-14 16:02:08.787][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2026-03-14 16:02:08.788][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2026-03-14 16:02:08.790][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2026-03-14 16:02:08.792][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2026-03-14 16:02:08.794][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2026-03-14 16:02:08.795][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2026-03-14 16:02:08.797][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2026-03-14 16:02:08.799][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2026-03-14 16:02:08.801][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2026-03-14 16:02:08.803][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2026-03-14 16:02:08.805][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2026-03-14 16:02:08.811][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2026-03-14 16:02:08.813][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2026-03-14 16:02:08.815][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2026-03-14 16:02:08.816][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2026-03-14 16:02:08.818][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2026-03-14 16:02:08.820][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2026-03-14 16:02:08.822][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2026-03-14 16:02:08.823][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2026-03-14 16:02:08.831][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2026-03-14 16:02:08.833][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2026-03-14 16:02:08.836][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2026-03-14 16:02:08.837][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:08.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:08.840][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.847][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:02:08.849][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:02:08.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:08.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:08.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.855][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:02:08.857][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:02:08.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:08.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:08.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.862][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:02:08.865][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:02:08.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:08.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:08.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.870][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:02:08.872][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:02:08.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:08.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:08.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.878][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:02:08.880][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:02:08.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:08.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:08.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.886][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:02:08.888][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:02:08.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:08.891][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:08.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.894][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:02:08.896][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:02:08.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:08.898][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:08.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:02:08.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:02:08.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:08.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:08.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.910][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:02:08.912][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:02:08.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:08.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:08.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.918][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:02:08.920][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:02:08.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:08.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:08.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:02:08.929][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:02:08.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:08.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:08.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:02:08.939][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:02:08.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:08.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:08.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.945][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:02:08.947][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:02:08.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:08.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:08.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.953][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:02:08.955][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:02:08.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:08.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:08.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.960][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:02:08.963][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:02:08.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:08.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:08.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.968][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2026-03-14 16:02:08.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:02:08.970][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:02:08.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:08.973][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:08.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:08.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2026-03-14 16:02:08.977][biodb$loadDefinitions] Load definitions from file "/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/definitions.yml".
biodb.DEBUG[2026-03-14 16:02:08.990][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2026-03-14 16:02:08.992][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2026-03-14 16:02:08.994][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2026-03-14 16:02:08.995][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2026-03-14 16:02:08.996][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2026-03-14 16:02:08.997][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2026-03-14 16:02:08.999][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2026-03-14 16:02:09.000][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2026-03-14 16:02:09.001][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2026-03-14 16:02:09.002][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2026-03-14 16:02:09.004][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2026-03-14 16:02:09.005][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2026-03-14 16:02:09.006][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2026-03-14 16:02:09.007][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2026-03-14 16:02:09.009][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2026-03-14 16:02:09.009][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2026-03-14 16:02:09.009][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2026-03-14 16:02:09.009][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2026-03-14 16:02:09.009][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2026-03-14 16:02:09.009][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2026-03-14 16:02:09.009][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2026-03-14 16:02:09.009][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2026-03-14 16:02:09.009][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2026-03-14 16:02:09.009][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2026-03-14 16:02:09.009][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2026-03-14 16:02:09.010][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2026-03-14 16:02:09.012][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2026-03-14 16:02:09.012][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2026-03-14 16:02:09.012][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2026-03-14 16:02:09.013][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2026-03-14 16:02:09.014][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-14 16:02:09.015][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-14 16:02:09.016][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2026-03-14 16:02:09.018][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2026-03-14 16:02:09.019][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2026-03-14 16:02:09.020][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2026-03-14 16:02:09.021][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2026-03-14 16:02:09.021][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2026-03-14 16:02:09.022][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2026-03-14 16:02:09.023][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2026-03-14 16:02:09.025][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2026-03-14 16:02:09.026][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2026-03-14 16:02:09.026][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2026-03-14 16:02:09.034][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2026-03-14 16:02:09.036][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2026-03-14 16:02:09.038][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2026-03-14 16:02:09.044][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2026-03-14 16:02:09.046][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2026-03-14 16:02:09.048][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2026-03-14 16:02:09.070][super$initialize] Initialize connector chebi.
biodb.DEBUG[2026-03-14 16:02:09.087][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2026-03-14 16:02:09.096][biodb::testThat]
biodb.INFO [2026-03-14 16:02:09.098][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2026-03-14 16:02:09.099][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:09.100][biodb::testThat]
biodb.TRACE[2026-03-14 16:02:09.104][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2026-03-14 16:02:09.107][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-03-14 16:02:09.110][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-03-14 16:02:09.119][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-14 16:02:09.121][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:02:09.122][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:02:09.139][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:09.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:09.142][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:09.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-03-14 16:02:09.153][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:09.154][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:09.155][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.156][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.158][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:09.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:09.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.179][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:02:09.181][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:02:09.182][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.183][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.220][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:02:09.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:02:09.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.226][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:02:09.227][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:02:09.228][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.230][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.231][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:02:09.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:02:09.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.236][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:02:09.238][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:02:09.239][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.240][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.242][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:02:09.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:02:09.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.247][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:02:09.248][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:02:09.250][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.251][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.253][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:02:09.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:02:09.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.258][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:09.259][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:09.260][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.262][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.263][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:09.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:09.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.269][ef$get] Asked field names are: mass.
biodb.TRACE[2026-03-14 16:02:09.270][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:09.271][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.272][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.274][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-03-14 16:02:09.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:09.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.280][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:09.281][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:09.282][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.283][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.285][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:09.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:09.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.301][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:02:09.302][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:02:09.304][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.305][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.307][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:02:09.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:02:09.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.312][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-03-14 16:02:09.313][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:02:09.314][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.316][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.317][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-03-14 16:02:09.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:02:09.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.323][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:02:09.324][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:02:09.325][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.326][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.328][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:02:09.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:02:09.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.334][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:09.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:09.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.340][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:09.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:09.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.345][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:09.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:09.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.350][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:09.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:09.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.355][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:09.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:09.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.360][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:09.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:09.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.365][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:09.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:09.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:09.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:09.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.420][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:09.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:09.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.425][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:09.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:09.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-03-14 16:02:09.430][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2026-03-14 16:02:09.433][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:02:09.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:02:09.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.438][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:02:09.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:02:09.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.512][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:02:09.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:02:09.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.517][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:02:09.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:02:09.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:09.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:09.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.528][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:09.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:09.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.533][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-03-14 16:02:09.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-03-14 16:02:09.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.538][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-03-14 16:02:09.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-03-14 16:02:09.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.543][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-03-14 16:02:09.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-03-14 16:02:09.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.548][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-03-14 16:02:09.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-03-14 16:02:09.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.556][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:09.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:09.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.579][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:09.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:09.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:09.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:09.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.597][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:09.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:09.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:09.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:09.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:09.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:09.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:09.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:09.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:09.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:09.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.626][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:09.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:09.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.631][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:09.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:09.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.636][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:09.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:09.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.651][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:09.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:09.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.656][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:09.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:09.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.661][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:09.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:09.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.667][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:09.668][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:09.669][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.670][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:09.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:09.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.688][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:09.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:09.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.693][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:09.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:09.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.698][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:09.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:09.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.703][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:09.705][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:09.706][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.707][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.708][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:09.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:09.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.728][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:02:09.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:02:09.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.733][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:02:09.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:02:09.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.738][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:02:09.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:02:09.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.743][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:02:09.745][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:02:09.746][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.747][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.748][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:02:09.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:02:09.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.764][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:02:09.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:02:09.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.770][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:02:09.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:02:09.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.775][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:02:09.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:02:09.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.780][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:02:09.781][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:02:09.782][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.783][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.785][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:02:09.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:02:09.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.800][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:09.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:09.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.806][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:09.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:09.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.811][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:09.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:09.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.816][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:09.817][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:09.819][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.820][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.821][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:09.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:09.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.837][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:09.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:09.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.842][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:09.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:09.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.847][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:09.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:09.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.852][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:09.854][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:09.855][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.856][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.857][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:09.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:09.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.873][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:02:09.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:02:09.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.878][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:02:09.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:02:09.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.883][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:02:09.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:02:09.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.888][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:02:09.890][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:02:09.891][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.892][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.893][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:02:09.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:02:09.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.909][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:02:09.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:02:09.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.920][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:02:09.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:02:09.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.924][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:02:09.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:02:09.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.930][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:02:09.931][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:02:09.932][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.934][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.935][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:02:09.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:02:09.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.951][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:09.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:09.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.956][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:09.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:09.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.961][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:09.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:09.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.966][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:09.968][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:09.969][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.970][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.971][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:09.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:09.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.988][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:02:09.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:02:09.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.993][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:02:09.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:02:09.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:09.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:09.998][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:02:10.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:02:10.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.003][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:02:10.005][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:02:10.006][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.007][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.009][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:02:10.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:02:10.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.024][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:02:10.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:02:10.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.030][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:02:10.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:02:10.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.035][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:02:10.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:02:10.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.040][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:02:10.041][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:02:10.042][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.044][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.045][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:02:10.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:02:10.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.061][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:02:10.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:02:10.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.066][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:02:10.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:02:10.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.071][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:02:10.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:02:10.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.076][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:02:10.078][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:02:10.079][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.080][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.082][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:02:10.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:02:10.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.097][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:10.099][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:10.100][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.102][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.108][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:02:10.110][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:02:10.111][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.112][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.124][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:02:10.125][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:02:10.127][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.128][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.134][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:02:10.136][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:02:10.137][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.138][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.145][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:02:10.147][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:02:10.148][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.149][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.156][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:10.158][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:10.159][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.160][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.167][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:10.168][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:10.169][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.171][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.178][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:10.179][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:10.181][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.182][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.189][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:02:10.190][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:02:10.192][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.193][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.199][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:02:10.201][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:02:10.202][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.203][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.210][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:02:10.211][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:02:10.213][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.214][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.238][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-2528-content.xml".
biodb.DEBUG[2026-03-14 16:02:10.288][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-03-14 16:02:10.290][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-03-14 16:02:10.292][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-14 16:02:10.293][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:02:10.294][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:02:10.301][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:10.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:10.303][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:10.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-03-14 16:02:10.307][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:10.308][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:10.309][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.310][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:10.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:10.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.344][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:02:10.346][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:02:10.347][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.348][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.350][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:02:10.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:02:10.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.355][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:02:10.356][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:02:10.358][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.359][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.361][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:02:10.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:02:10.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.366][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:02:10.368][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:02:10.369][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.370][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.372][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:02:10.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:02:10.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.377][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:02:10.378][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:02:10.379][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.381][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.382][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:02:10.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:02:10.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.387][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:10.389][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:10.390][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.391][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.393][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:10.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:10.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.398][ef$get] Asked field names are: mass.
biodb.TRACE[2026-03-14 16:02:10.399][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:10.400][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.401][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.403][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-03-14 16:02:10.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:10.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.408][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:10.410][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:10.411][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.412][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.413][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:10.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:10.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.419][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:02:10.420][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:02:10.421][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.422][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.424][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:02:10.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:02:10.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.429][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-03-14 16:02:10.431][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:02:10.432][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.433][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.435][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-03-14 16:02:10.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:02:10.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.440][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:02:10.441][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:02:10.442][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.443][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.445][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:02:10.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:02:10.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.450][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:10.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:10.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.455][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:10.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:10.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.460][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:10.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:10.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.466][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:10.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:10.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:10.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:10.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.476][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:10.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:10.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.481][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:10.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:10.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.486][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:10.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:10.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.491][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:10.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:10.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.496][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:10.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:10.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-03-14 16:02:10.501][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 2528.
biodb.TRACE[2026-03-14 16:02:10.532][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:02:10.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:02:10.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.537][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:02:10.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:02:10.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.542][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:02:10.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:02:10.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.547][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:02:10.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:02:10.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.552][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:10.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:10.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.557][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:10.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:10.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.562][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-03-14 16:02:10.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-03-14 16:02:10.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.567][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-03-14 16:02:10.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-03-14 16:02:10.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.572][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-03-14 16:02:10.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-03-14 16:02:10.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.577][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-03-14 16:02:10.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-03-14 16:02:10.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:10.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:10.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.593][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:10.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:10.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:10.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:10.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.608][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:10.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:10.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.613][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:10.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:10.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:10.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:10.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.625][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:10.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:10.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:10.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:10.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.635][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:10.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:10.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.640][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:10.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:10.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.645][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:10.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:10.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.671][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:10.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:10.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.676][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:10.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:10.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.681][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:10.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:10.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.686][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:10.688][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:10.689][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.695][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.696][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:10.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:10.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:10.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:10.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.716][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:10.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:10.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.721][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:10.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:10.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.726][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:10.728][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:10.729][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.730][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.731][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:10.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:10.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.746][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:02:10.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:02:10.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.752][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:02:10.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:02:10.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.756][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:02:10.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:02:10.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.762][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:02:10.763][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:02:10.764][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.765][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.766][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:02:10.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:02:10.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.782][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:02:10.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:02:10.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.787][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:02:10.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:02:10.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.792][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:02:10.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:02:10.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.797][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:02:10.798][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:02:10.799][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.800][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.802][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:02:10.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:02:10.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.817][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-03-14 16:02:10.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:10.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.822][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:10.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:10.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.827][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:10.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:10.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.832][ef$get] Asked field names are: mass.
biodb.TRACE[2026-03-14 16:02:10.834][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:10.835][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.836][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.837][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-03-14 16:02:10.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:10.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.853][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:10.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:10.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.858][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:10.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:10.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.863][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:10.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:10.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.868][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:10.869][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:10.870][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.872][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.873][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:10.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:10.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.893][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:10.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:10.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.898][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:10.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:10.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.903][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:10.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:10.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.908][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:10.909][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:10.910][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.911][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.913][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:10.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:10.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.928][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:02:10.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:02:10.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.933][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:02:10.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:02:10.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.938][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:02:10.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:02:10.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.943][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:02:10.944][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:02:10.946][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.947][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.948][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:02:10.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:02:10.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.963][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:02:10.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:02:10.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.968][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:02:10.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:02:10.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.973][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:02:10.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:02:10.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.978][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:02:10.979][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:02:10.981][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.982][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.983][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:02:10.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:02:10.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:10.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:10.998][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:11.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:11.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.003][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:11.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:11.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.008][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:11.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:11.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.013][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:11.015][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:11.016][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.017][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.018][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:11.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:11.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.034][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:02:11.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:02:11.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.039][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:02:11.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:02:11.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.044][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:02:11.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:02:11.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.049][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:02:11.050][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:02:11.051][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.052][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.053][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:02:11.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:02:11.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.069][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:02:11.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:02:11.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.074][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:02:11.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:02:11.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.085][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:02:11.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:02:11.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.090][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:02:11.091][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:02:11.092][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.094][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.095][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:02:11.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:02:11.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.110][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:02:11.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:02:11.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.115][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:02:11.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:02:11.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.120][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:02:11.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:02:11.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.125][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:02:11.126][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:02:11.128][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.129][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.130][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:02:11.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:02:11.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.145][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:11.147][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:11.148][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.149][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.155][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:02:11.157][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:02:11.158][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.159][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.166][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:02:11.167][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:02:11.168][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.169][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.176][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:02:11.177][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:02:11.178][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.179][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.186][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:02:11.187][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:02:11.189][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.190][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.196][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:11.198][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:11.199][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.200][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.207][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:11.208][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:11.209][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.210][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.217][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:11.219][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:11.220][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.221][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.228][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:02:11.229][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:02:11.230][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.232][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.238][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:02:11.240][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:02:11.241][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.242][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.249][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:02:11.251][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:02:11.252][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.253][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.260][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-7799-content.xml".
biodb.DEBUG[2026-03-14 16:02:11.261][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2026-03-14 16:02:11.263][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2026-03-14 16:02:11.265][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-14 16:02:11.266][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:02:11.267][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:02:11.273][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:11.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:11.275][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:11.276][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-03-14 16:02:11.279][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:11.281][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:11.282][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.287][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:11.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:11.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.294][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:02:11.295][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:02:11.296][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.298][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.299][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:02:11.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:02:11.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.304][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:02:11.306][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:02:11.307][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.308][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.309][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:02:11.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:02:11.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.315][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:02:11.316][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:02:11.317][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.318][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.320][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:02:11.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:02:11.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.325][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:02:11.326][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:02:11.327][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.328][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.330][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:02:11.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:02:11.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.335][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:11.336][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:11.338][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.339][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.340][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:11.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:11.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.345][ef$get] Asked field names are: mass.
biodb.TRACE[2026-03-14 16:02:11.347][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:11.348][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.349][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.351][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2026-03-14 16:02:11.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:11.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.356][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:11.357][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:11.358][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.359][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.361][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:11.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:11.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.366][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:02:11.367][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:02:11.369][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.370][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.372][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:02:11.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:02:11.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.377][ef$get] Asked field names are: n_stars.
biodb.TRACE[2026-03-14 16:02:11.378][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:02:11.379][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.380][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.382][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2026-03-14 16:02:11.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:02:11.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.387][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:02:11.388][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:02:11.390][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.391][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.392][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:02:11.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:02:11.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.397][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:11.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:11.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.402][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:11.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:11.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:11.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:11.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.412][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:11.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:11.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:11.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:11.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:11.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:11.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.427][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:11.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:11.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:11.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:11.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.437][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:11.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:11.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.442][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:11.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:11.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-03-14 16:02:11.447][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 7799.
biodb.TRACE[2026-03-14 16:02:11.450][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:02:11.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:02:11.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.455][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:02:11.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:02:11.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.460][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:02:11.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:02:11.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.465][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:02:11.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:02:11.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.470][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:11.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:11.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.480][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:11.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:11.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.485][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-03-14 16:02:11.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-03-14 16:02:11.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.490][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2026-03-14 16:02:11.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2026-03-14 16:02:11.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.495][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2026-03-14 16:02:11.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2026-03-14 16:02:11.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.500][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2026-03-14 16:02:11.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2026-03-14 16:02:11.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.507][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:11.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:11.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.517][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:11.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:11.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:11.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:11.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.534][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:11.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:11.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:11.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:11.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:11.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:11.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:11.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:11.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.556][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:11.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:11.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.561][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:11.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:11.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.566][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:11.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:11.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.571][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:11.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:11.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.584][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:11.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:11.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.589][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:11.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:11.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.594][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:11.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:11.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.599][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:11.600][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:11.601][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.602][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.604][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:11.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:11.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.619][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:02:11.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:02:11.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.624][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:02:11.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:02:11.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.629][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:02:11.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:02:11.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.634][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:02:11.635][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:02:11.636][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.638][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.639][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:02:11.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:02:11.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.655][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:02:11.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:02:11.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.660][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:02:11.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:02:11.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.665][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:02:11.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:02:11.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.670][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:02:11.676][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:02:11.677][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.678][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.679][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:02:11.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:02:11.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.695][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:02:11.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:02:11.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.700][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:02:11.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:02:11.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.705][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:02:11.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:02:11.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.710][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:02:11.712][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:02:11.713][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.714][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.715][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:02:11.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:02:11.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.731][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:11.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:11.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.736][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:11.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:11.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.741][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:11.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:11.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.747][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:11.748][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:11.749][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.750][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.752][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:11.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:11.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.767][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:11.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:11.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.772][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:11.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:11.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.777][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:11.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:11.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.782][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:11.784][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:11.785][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.786][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.788][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:11.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:11.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.803][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:11.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:11.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.808][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:11.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:11.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.813][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:11.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:11.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.819][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:11.820][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:11.821][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.822][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.824][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:11.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:11.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.839][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:02:11.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:02:11.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.845][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:02:11.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:02:11.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.850][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:02:11.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:02:11.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.855][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:02:11.856][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:02:11.857][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.858][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.860][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:02:11.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:02:11.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.880][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:02:11.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:02:11.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.885][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:02:11.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:02:11.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.890][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:02:11.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:02:11.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.895][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:02:11.897][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:02:11.898][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.899][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.900][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:02:11.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:02:11.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.916][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:02:11.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:02:11.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.921][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:02:11.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:02:11.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.926][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:02:11.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:02:11.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.931][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:02:11.933][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:02:11.934][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.935][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.936][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:02:11.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:02:11.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.953][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:02:11.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:02:11.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.958][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:02:11.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:02:11.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.963][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:02:11.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:02:11.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.968][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:02:11.970][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:02:11.971][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.972][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.973][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:02:11.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:02:11.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:11.990][ef$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:11.991][ef$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:11.993][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:11.994][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:12.001][ef$get] Asked field names are: charge.
biodb.TRACE[2026-03-14 16:02:12.003][ef$get] Realnames of fields are: charge.
biodb.TRACE[2026-03-14 16:02:12.004][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:12.005][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:12.011][ef$get] Asked field names are: formula.
biodb.TRACE[2026-03-14 16:02:12.013][ef$get] Realnames of fields are: formula.
biodb.TRACE[2026-03-14 16:02:12.014][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:12.015][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:12.021][ef$get] Asked field names are: inchi.
biodb.TRACE[2026-03-14 16:02:12.023][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2026-03-14 16:02:12.024][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:12.025][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:12.032][ef$get] Asked field names are: inchikey.
biodb.TRACE[2026-03-14 16:02:12.033][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2026-03-14 16:02:12.034][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:12.036][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:12.042][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:12.044][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2026-03-14 16:02:12.045][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:12.046][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:12.053][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:12.054][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2026-03-14 16:02:12.055][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:12.056][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:12.063][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:12.064][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:12.066][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:12.067][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:12.077][ef$get] Asked field names are: n.stars.
biodb.TRACE[2026-03-14 16:02:12.078][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2026-03-14 16:02:12.080][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:12.081][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:12.087][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:02:12.088][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:02:12.090][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:12.091][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:12.097][ef$get] Asked field names are: smiles.
biodb.TRACE[2026-03-14 16:02:12.098][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2026-03-14 16:02:12.099][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:12.101][ef$get] fields variable is a list.
biodb.INFO [2026-03-14 16:02:12.111][biodb::testThat]
biodb.INFO [2026-03-14 16:02:12.112][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2026-03-14 16:02:12.113][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:12.114][biodb::testThat]
biodb.DEBUG[2026-03-14 16:02:12.117][private$loadEntries] Creating entries from ids [3]: "15440, 2528, 7799".
biodb.DEBUG[2026-03-14 16:02:12.246][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2026-03-14 16:02:12.250][cch$loadContents] Load 3 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2026-03-14 16:02:12.252][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2026-03-14 16:02:12.253][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2026-03-14 16:02:12.254][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2026-03-14 16:02:12.256][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2026-03-14 16:02:12.263][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-14 16:02:12.264][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:02:12.265][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:02:12.272][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:12.273][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:12.274][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:12.275][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".
sched.DEBUG[2026-03-14 16:02:12.278][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
fscache.INFO [2026-03-14 16:02:12.305][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
sched.DEBUG[2026-03-14 16:02:12.307][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:12.308][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:12.309][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-14 16:02:12.711][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-14 16:02:12.712][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:12.713][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:12.715][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-14 16:02:13.339][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:13.341][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:13.342][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:13.344][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-14 16:02:13.735][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-14 16:02:13.736][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:13.738][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:13.739][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-14 16:02:14.149][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:14.150][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:14.151][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:14.153][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-14 16:02:14.544][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-14 16:02:14.545][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:14.546][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:14.547][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-14 16:02:14.956][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:14.958][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:14.959][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:14.961][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-14 16:02:15.352][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-14 16:02:15.353][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:15.355][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:15.356][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-14 16:02:15.767][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:15.768][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:15.769][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:15.771][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-14 16:02:16.161][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-14 16:02:16.162][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:16.164][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:16.165][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-14 16:02:16.574][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:16.575][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:16.576][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:16.578][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-14 16:02:16.969][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-14 16:02:16.970][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:16.972][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:16.973][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-14 16:02:17.383][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:17.385][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:17.386][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:17.387][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-14 16:02:17.779][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-14 16:02:17.780][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:17.782][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:17.783][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-14 16:02:18.192][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:18.194][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:18.200][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:18.212][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-14 16:02:18.602][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-14 16:02:18.603][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:18.605][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:18.606][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-14 16:02:19.015][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:19.017][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:19.018][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:19.020][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-14 16:02:19.411][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-14 16:02:19.412][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:19.413][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:19.415][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-14 16:02:19.824][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:19.825][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:19.827][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:19.828][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2026-03-14 16:02:20.219][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2026-03-14 16:02:20.220][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:20.222][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:20.223][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2026-03-14 16:02:20.632][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
biodb.DEBUG[2026-03-14 16:02:20.634][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-14 16:02:20.635][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:02:20.637][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:02:20.643][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:20.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:20.646][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:20.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2026-03-14 16:02:20.670][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
fscache.INFO [2026-03-14 16:02:20.711][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
sched.DEBUG[2026-03-14 16:02:20.733][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:20.735][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:20.736][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-14 16:02:21.126][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-14 16:02:21.128][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:21.129][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:21.130][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-14 16:02:21.734][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:21.736][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:21.737][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:21.739][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-14 16:02:22.129][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-14 16:02:22.131][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:22.132][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:22.133][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-14 16:02:22.545][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:22.546][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:22.548][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:22.549][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-14 16:02:22.941][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-14 16:02:22.942][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:22.943][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:22.945][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-14 16:02:23.556][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:23.565][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:23.567][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:23.568][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-14 16:02:23.961][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-14 16:02:23.962][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:23.963][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:23.965][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-14 16:02:24.488][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:24.489][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:24.490][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:24.492][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-14 16:02:24.882][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-14 16:02:24.883][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:24.885][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:24.886][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-14 16:02:25.314][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:25.316][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:25.318][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:25.321][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-14 16:02:25.714][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-14 16:02:25.715][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:25.717][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:25.718][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-14 16:02:26.129][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:26.130][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:26.131][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:26.133][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-14 16:02:26.523][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-14 16:02:26.525][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:26.526][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:26.527][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-14 16:02:26.939][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:26.941][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:26.943][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:26.945][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-14 16:02:27.337][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-14 16:02:27.338][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:27.339][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:27.340][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-14 16:02:27.749][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:27.751][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:27.752][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:27.753][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-14 16:02:28.145][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-14 16:02:28.146][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:28.148][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:28.149][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-14 16:02:28.558][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:28.560][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:28.561][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:28.563][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2026-03-14 16:02:28.955][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2026-03-14 16:02:28.956][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:28.958][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:28.959][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2026-03-14 16:02:29.369][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
biodb.DEBUG[2026-03-14 16:02:29.370][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-14 16:02:29.371][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:02:29.372][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:02:29.379][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:29.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:29.381][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:29.382][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2026-03-14 16:02:29.383][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
fscache.INFO [2026-03-14 16:02:29.386][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
sched.DEBUG[2026-03-14 16:02:29.388][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:29.389][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:29.391][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-14 16:02:29.781][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-14 16:02:29.782][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:29.784][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:29.785][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-14 16:02:30.195][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:30.197][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:30.198][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:30.200][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-14 16:02:30.591][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-14 16:02:30.592][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:30.594][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:30.595][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-14 16:02:31.004][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:31.005][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:31.006][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:31.008][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-14 16:02:31.399][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-14 16:02:31.400][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:31.402][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:31.403][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-14 16:02:31.812][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:31.813][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:31.815][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:31.816][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-14 16:02:32.210][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-14 16:02:32.211][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:32.212][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:32.213][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-14 16:02:32.622][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:32.624][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:32.625][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:32.627][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-14 16:02:33.018][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-14 16:02:33.019][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:33.021][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:33.022][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-14 16:02:33.436][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:33.438][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:33.440][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:33.443][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-14 16:02:33.840][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-14 16:02:33.841][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:33.843][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:33.844][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-14 16:02:34.256][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:34.258][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:34.259][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:34.261][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-14 16:02:34.655][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-14 16:02:34.656][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:34.657][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:34.658][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-14 16:02:35.071][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:35.072][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:35.073][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:35.075][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-14 16:02:35.469][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-14 16:02:35.471][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:35.505][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:35.506][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-14 16:02:35.915][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:35.916][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:35.917][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:35.919][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-14 16:02:36.312][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-14 16:02:36.314][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:36.315][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:36.316][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-14 16:02:36.725][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2026-03-14 16:02:36.727][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2026-03-14 16:02:36.728][private$doSendRequestLoop] Request body is "".
sched.TRACE[2026-03-14 16:02:36.729][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2026-03-14 16:02:37.121][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2026-03-14 16:02:37.122][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2026-03-14 16:02:37.123][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2026-03-14 16:02:37.125][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2026-03-14 16:02:37.534][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
fscache.INFO [2026-03-14 16:02:37.536][cch$saveContents] Save 3 contents to /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2026-03-14 16:02:37.537][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2026-03-14 16:02:37.539][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2026-03-14 16:02:37.540][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2026-03-14 16:02:37.542][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-14 16:02:37.544][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:02:37.545][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:02:37.551][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:37.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:37.553][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:37.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-03-14 16:02:37.557][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:37.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:37.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:37.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:37.562][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:37.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:37.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:37.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:37.567][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:37.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:37.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:37.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-03-14 16:02:37.572][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-14 16:02:37.573][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:02:37.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:02:37.581][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:37.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:37.583][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:37.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-03-14 16:02:37.587][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:37.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:37.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:37.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:37.592][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:37.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:37.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:37.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:37.597][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:37.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:37.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:37.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-03-14 16:02:37.602][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2026-03-14 16:02:37.603][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:02:37.604][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:02:37.610][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:37.611][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:37.613][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:37.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2026-03-14 16:02:37.616][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:37.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:37.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:37.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:37.621][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2026-03-14 16:02:37.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2026-03-14 16:02:37.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:37.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:37.626][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:37.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:37.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:37.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:37.631][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:37.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:37.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:37.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:37.636][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:37.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:37.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:37.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:37.641][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:37.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:37.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:37.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:37.646][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:37.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:37.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:37.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:37.651][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:37.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:37.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:37.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:37.656][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:37.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:37.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:37.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:37.661][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:37.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:37.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:37.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:37.666][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:37.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:37.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:37.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:37.671][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:37.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:37.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:37.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:37.676][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:37.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:37.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:37.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:37.681][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:37.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:37.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:37.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:37.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:37.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:37.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:37.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:37.699][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:37.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:37.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:37.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:37.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:37.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:37.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:37.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:37.709][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2026-03-14 16:02:37.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2026-03-14 16:02:37.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:37.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2026-03-14 16:02:37.714][self$createEntryFromContent] Accession numbers: NA, NA, NA.
biodb.DEBUG[2026-03-14 16:02:37.715][self$createEntryFromContent] Found 3 entry/ies without an accession number. Set it/them to NULL.
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-14 16:02:37.899][biodb::testThat]
biodb.INFO [2026-03-14 16:02:37.901][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2026-03-14 16:02:37.902][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:37.903][biodb::testThat]
biodb.TRACE[2026-03-14 16:02:37.907][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:02:37.908][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:02:37.910][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:37.911][ef$get] fields variable is a list.
biodb.DEBUG[2026-03-14 16:02:37.912][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-14 16:02:38.256][biodb::testThat]
biodb.INFO [2026-03-14 16:02:38.257][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2026-03-14 16:02:38.259][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:38.260][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-14 16:02:38.416][biodb::testThat]
biodb.INFO [2026-03-14 16:02:38.418][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2026-03-14 16:02:38.419][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:38.420][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-14 16:02:38.566][biodb::testThat]
biodb.INFO [2026-03-14 16:02:38.567][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2026-03-14 16:02:38.569][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:38.570][biodb::testThat]
biodb.INFO [2026-03-14 16:02:38.582][biodb::testThat]
biodb.INFO [2026-03-14 16:02:38.584][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2026-03-14 16:02:38.585][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:38.586][biodb::testThat]
biodb.INFO [2026-03-14 16:02:38.597][biodb::testThat]
biodb.INFO [2026-03-14 16:02:38.598][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2026-03-14 16:02:38.599][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:38.601][biodb::testThat]
biodb.DEBUG[2026-03-14 16:02:38.606][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2026-03-14 16:02:39.183][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2026-03-14 16:02:39.594][biodb::testThat]
biodb.INFO [2026-03-14 16:02:39.595][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2026-03-14 16:02:39.597][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:39.598][biodb::testThat]
biodb.TRACE[2026-03-14 16:02:39.625][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:02:39.627][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:02:39.628][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:39.629][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:39.631][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:39.632][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:39.634][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:39.635][ef$get] fields variable is a list.
biodb.INFO [2026-03-14 16:02:39.637][biodb::testThat]
biodb.INFO [2026-03-14 16:02:39.639][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2026-03-14 16:02:39.640][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:39.641][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-14 16:02:39.930][biodb::testThat]
biodb.INFO [2026-03-14 16:02:39.931][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2026-03-14 16:02:39.933][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:39.934][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-14 16:02:40.009][biodb::testThat]
biodb.INFO [2026-03-14 16:02:40.011][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2026-03-14 16:02:40.012][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:40.014][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-14 16:02:40.087][biodb::testThat]
biodb.INFO [2026-03-14 16:02:40.088][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2026-03-14 16:02:40.090][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:40.091][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.TRACE[2026-03-14 16:02:40.164][ef$get] Asked field names are: name.
biodb.TRACE[2026-03-14 16:02:40.166][ef$get] Realnames of fields are: name.
biodb.TRACE[2026-03-14 16:02:40.167][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:40.169][ef$get] fields variable is a list.
biodb.TRACE[2026-03-14 16:02:40.170][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:40.172][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2026-03-14 16:02:40.173][ef$get] 1 fields were returned.
biodb.TRACE[2026-03-14 16:02:40.175][ef$get] fields variable is a list.
biodb.INFO [2026-03-14 16:02:40.177][biodb::testThat]
biodb.INFO [2026-03-14 16:02:40.178][biodb::testThat] Running test function  test.annotateMzValues_real_values  (" annotateMzValues() works correctly with real values. ").
biodb.INFO [2026-03-14 16:02:40.180][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:40.181][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-14 16:02:40.254][biodb::testThat]
biodb.INFO [2026-03-14 16:02:40.255][biodb::testThat] Running test function  test_annotateMzValues_additional_fields  (" Additional fields are accepted in annotateMzValues() ").
biodb.INFO [2026-03-14 16:02:40.257][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2026-03-14 16:02:40.258][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2026-03-14 16:02:40.328][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2026-03-14 16:02:40.329][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2026-03-14 16:02:40.331][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2026-03-14 16:02:40.332][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2026-03-14 16:02:40.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2026-03-14 16:02:40.334][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2026-03-14 16:02:40.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2026-03-14 16:02:40.336][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2026-03-14 16:02:40.337][FUN] Functions in observer 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:
###
###   /Library/Frameworks/R.framework/Resources/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 ‘/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbChebi.Rcheck’
* using R version 4.5.2 (2025-10-31)
* using platform: x86_64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Monterey 12.7.6
* 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 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
  ‘/Users/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)