Back to Long Tests report for BioC 3.23

This page was generated on 2025-12-06 23:55 -0500 (Sat, 06 Dec 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_64R Under development (unstable) (2025-10-20 r88955) -- "Unsuffered Consequences" 4869
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 6/28HostnameOS / ArchCHECK
biodbChebi 1.17.0  (landing page)
Pierrick Roger
Snapshot Date: 2025-12-06 09:55 -0500 (Sat, 06 Dec 2025)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: devel
git_last_commit: 80ee611
git_last_commit_date: 2025-10-29 11:12:25 -0500 (Wed, 29 Oct 2025)
nebbiolo1Linux (Ubuntu 24.04.3 LTS) / x86_64  ERROR  

CHECK results for biodbChebi on nebbiolo1

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: 1.17.0
Command: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbChebi_1.17.0.tar.gz
StartedAt: 2025-12-06 16:01:06 -0500 (Sat, 06 Dec 2025)
EndedAt: 2025-12-06 16:02:28 -0500 (Sat, 06 Dec 2025)
EllapsedTime: 82.1 seconds
RetCode: 1
Status:   ERROR  
CheckDir: biodbChebi.Rcheck
Warnings: NA

Tests output

biodbChebi.Rcheck/tests/testthat.Rout.fail


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Platform: x86_64-pc-linux-gnu

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> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2025-12-06 16:01:44.374][biodb::testContext]
biodb.INFO [2025-12-06 16:01:44.376][biodb::testContext] ********************************************************************************
biodb.INFO [2025-12-06 16:01:44.377][biodb::testContext] Test context - Generic long tests
biodb.INFO [2025-12-06 16:01:44.378][biodb::testContext] ********************************************************************************
biodb.INFO [2025-12-06 16:01:44.379][biodb::testContext]
biodb.INFO [2025-12-06 16:01:44.385][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.19.0.
biodb.DEBUG[2025-12-06 16:01:44.387][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.23-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-12-06 16:01:44.393][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-12-06 16:01:44.394][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-12-06 16:01:44.395][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-12-06 16:01:44.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.399][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-12-06 16:01:44.415][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-12-06 16:01:44.416][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.419][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-12-06 16:01:44.420][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-12-06 16:01:44.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.423][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-12-06 16:01:44.424][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-12-06 16:01:44.425][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-12-06 16:01:44.426][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.429][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-12-06 16:01:44.429][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-12-06 16:01:44.430][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-12-06 16:01:44.431][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.434][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-12-06 16:01:44.435][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-12-06 16:01:44.436][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.438][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-12-06 16:01:44.439][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-12-06 16:01:44.440][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-12-06 16:01:44.441][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.443][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.444][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-12-06 16:01:44.445][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-12-06 16:01:44.446][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.448][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-12-06 16:01:44.449][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-12-06 16:01:44.450][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-12-06 16:01:44.451][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.453][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-12-06 16:01:44.454][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-12-06 16:01:44.455][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-12-06 16:01:44.456][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-12-06 16:01:44.457][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-12-06 16:01:44.458][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-12-06 16:01:44.459][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.462][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-12-06 16:01:44.463][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-12-06 16:01:44.463][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.466][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-12-06 16:01:44.467][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-12-06 16:01:44.468][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.471][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-12-06 16:01:44.472][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-12-06 16:01:44.472][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.475][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-12-06 16:01:44.476][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-12-06 16:01:44.477][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-12-06 16:01:44.478][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.480][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-12-06 16:01:44.481][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-12-06 16:01:44.485][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-12-06 16:01:44.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.488][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.489][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-12-06 16:01:44.490][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-12-06 16:01:44.491][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-12-06 16:01:44.492][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.497][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-12-06 16:01:44.527][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-12-06 16:01:44.542][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-12-06 16:01:44.543][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-12-06 16:01:44.544][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-12-06 16:01:44.545][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-12-06 16:01:44.546][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-12-06 16:01:44.547][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-12-06 16:01:44.548][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-12-06 16:01:44.549][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-12-06 16:01:44.550][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-12-06 16:01:44.551][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-12-06 16:01:44.551][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-12-06 16:01:44.552][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-12-06 16:01:44.553][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-12-06 16:01:44.554][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-12-06 16:01:44.555][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-12-06 16:01:44.555][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-12-06 16:01:44.555][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-12-06 16:01:44.555][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-12-06 16:01:44.555][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-12-06 16:01:44.556][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-12-06 16:01:44.557][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-12-06 16:01:44.558][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-12-06 16:01:44.565][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-12-06 16:01:44.566][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-12-06 16:01:44.567][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-12-06 16:01:44.568][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-12-06 16:01:44.569][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-12-06 16:01:44.569][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-12-06 16:01:44.570][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-12-06 16:01:44.571][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-12-06 16:01:44.572][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-12-06 16:01:44.573][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-12-06 16:01:44.575][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-12-06 16:01:44.576][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-12-06 16:01:44.577][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-12-06 16:01:44.578][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-12-06 16:01:44.579][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-12-06 16:01:44.579][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-12-06 16:01:44.580][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-12-06 16:01:44.581][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-12-06 16:01:44.582][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-12-06 16:01:44.583][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-12-06 16:01:44.584][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-12-06 16:01:44.585][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-12-06 16:01:44.586][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-12-06 16:01:44.587][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-12-06 16:01:44.588][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-12-06 16:01:44.589][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-12-06 16:01:44.589][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-12-06 16:01:44.589][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-12-06 16:01:44.589][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-12-06 16:01:44.589][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-12-06 16:01:44.590][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-12-06 16:01:44.591][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-12-06 16:01:44.592][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-12-06 16:01:44.593][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-12-06 16:01:44.593][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-12-06 16:01:44.594][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-12-06 16:01:44.595][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-12-06 16:01:44.596][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-12-06 16:01:44.597][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-12-06 16:01:44.598][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-12-06 16:01:44.599][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-12-06 16:01:44.600][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-12-06 16:01:44.601][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-12-06 16:01:44.603][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-12-06 16:01:44.604][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-12-06 16:01:44.605][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-12-06 16:01:44.606][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-12-06 16:01:44.607][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-12-06 16:01:44.608][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-12-06 16:01:44.608][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-12-06 16:01:44.609][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-12-06 16:01:44.610][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-12-06 16:01:44.611][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-12-06 16:01:44.612][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-12-06 16:01:44.613][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-12-06 16:01:44.614][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-12-06 16:01:44.615][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-12-06 16:01:44.616][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-12-06 16:01:44.617][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-12-06 16:01:44.618][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-12-06 16:01:44.619][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-12-06 16:01:44.620][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-12-06 16:01:44.621][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-12-06 16:01:44.621][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-12-06 16:01:44.622][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-12-06 16:01:44.623][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-12-06 16:01:44.624][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-12-06 16:01:44.625][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-12-06 16:01:44.626][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-12-06 16:01:44.627][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-12-06 16:01:44.628][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-12-06 16:01:44.629][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-12-06 16:01:44.631][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-12-06 16:01:44.631][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-12-06 16:01:44.632][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-12-06 16:01:44.633][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-12-06 16:01:44.634][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-12-06 16:01:44.635][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-12-06 16:01:44.636][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-12-06 16:01:44.637][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-12-06 16:01:44.638][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-12-06 16:01:44.639][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-12-06 16:01:44.640][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-12-06 16:01:44.641][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-12-06 16:01:44.642][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-12-06 16:01:44.643][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-12-06 16:01:44.644][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-12-06 16:01:44.645][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-12-06 16:01:44.646][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-12-06 16:01:44.647][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-12-06 16:01:44.647][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-12-06 16:01:44.648][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-12-06 16:01:44.649][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-12-06 16:01:44.650][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-12-06 16:01:44.651][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-12-06 16:01:44.652][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-12-06 16:01:44.653][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-12-06 16:01:44.654][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-12-06 16:01:44.655][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-12-06 16:01:44.656][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-12-06 16:01:44.659][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-12-06 16:01:44.660][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.662][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:44.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:44.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.665][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[2025-12-06 16:01:44.666][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:44.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:44.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.670][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.670][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:44.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:44.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.675][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:44.676][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:44.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.678][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.679][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:44.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:44.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.683][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:44.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:44.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.688][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:44.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:44.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.692][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:44.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:44.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.696][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:44.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:44.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.700][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.707][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:44.711][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:44.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.713][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:44.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:44.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.718][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:44.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:44.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.723][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:44.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:44.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.728][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:44.730][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:44.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.733][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:44.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:44.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:44.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:44.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.742][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-12-06 16:01:44.748][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-12-06 16:01:44.750][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-12-06 16:01:44.751][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-12-06 16:01:44.753][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-12-06 16:01:44.754][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-12-06 16:01:44.756][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-12-06 16:01:44.757][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-12-06 16:01:44.759][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-12-06 16:01:44.760][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-12-06 16:01:44.762][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-12-06 16:01:44.763][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-12-06 16:01:44.764][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-12-06 16:01:44.766][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-12-06 16:01:44.767][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-12-06 16:01:44.769][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-12-06 16:01:44.788][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-12-06 16:01:44.789][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-12-06 16:01:44.791][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-12-06 16:01:44.792][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-12-06 16:01:44.793][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-12-06 16:01:44.795][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-12-06 16:01:44.796][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-12-06 16:01:44.798][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-12-06 16:01:44.799][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-12-06 16:01:44.801][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-12-06 16:01:44.802][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-12-06 16:01:44.803][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-12-06 16:01:44.805][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-12-06 16:01:44.806][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-12-06 16:01:44.808][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-12-06 16:01:44.809][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-12-06 16:01:44.811][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-12-06 16:01:44.812][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-12-06 16:01:44.814][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-12-06 16:01:44.815][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-12-06 16:01:44.817][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-12-06 16:01:44.818][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-12-06 16:01:44.820][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-12-06 16:01:44.821][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-12-06 16:01:44.823][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-12-06 16:01:44.824][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-12-06 16:01:44.826][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-12-06 16:01:44.827][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-12-06 16:01:44.829][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-12-06 16:01:44.830][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-12-06 16:01:44.832][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-12-06 16:01:44.833][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-12-06 16:01:44.835][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-12-06 16:01:44.836][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-12-06 16:01:44.838][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-12-06 16:01:44.839][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-12-06 16:01:44.840][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-12-06 16:01:44.842][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-12-06 16:01:44.843][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-12-06 16:01:44.845][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-12-06 16:01:44.846][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-12-06 16:01:44.847][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-12-06 16:01:44.849][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-12-06 16:01:44.850][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-12-06 16:01:44.852][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-12-06 16:01:44.853][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-12-06 16:01:44.855][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-12-06 16:01:44.856][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-12-06 16:01:44.857][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-12-06 16:01:44.859][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-12-06 16:01:44.860][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-12-06 16:01:44.862][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-12-06 16:01:44.863][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-12-06 16:01:44.865][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-12-06 16:01:44.866][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-12-06 16:01:44.867][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-12-06 16:01:44.869][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-12-06 16:01:44.870][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-12-06 16:01:44.872][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-12-06 16:01:44.873][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-12-06 16:01:44.875][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-12-06 16:01:44.876][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-12-06 16:01:44.877][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-12-06 16:01:44.879][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-12-06 16:01:44.880][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-12-06 16:01:44.882][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-12-06 16:01:44.883][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-12-06 16:01:44.890][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-12-06 16:01:44.891][initialize] This is biodb version 1.19.0.
biodb.DEBUG[2025-12-06 16:01:44.895][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-12-06 16:01:44.896][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:44.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:44.898][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.904][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-06 16:01:44.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-06 16:01:44.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:44.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:44.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.910][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-06 16:01:44.912][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-06 16:01:44.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:44.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:44.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.917][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-06 16:01:44.918][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-06 16:01:44.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:44.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:44.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.923][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-06 16:01:44.925][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-06 16:01:44.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:44.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:44.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.929][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-06 16:01:44.931][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-06 16:01:44.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:44.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:44.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.935][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[2025-12-06 16:01:44.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-06 16:01:44.937][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-06 16:01:44.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:44.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:44.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.941][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-06 16:01:44.943][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-06 16:01:44.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:44.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:44.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.947][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-06 16:01:44.949][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-06 16:01:44.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:44.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:44.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.953][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-06 16:01:44.955][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-06 16:01:44.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:44.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:44.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.959][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-06 16:01:44.961][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-06 16:01:44.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:44.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:44.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.965][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-06 16:01:44.967][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-06 16:01:44.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:44.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:44.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.971][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-06 16:01:44.973][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-06 16:01:44.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:44.974][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:44.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.976][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.977][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-06 16:01:44.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-06 16:01:44.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:44.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:44.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.987][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-06 16:01:44.989][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-06 16:01:44.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:44.990][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:44.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.993][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:44.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-06 16:01:44.995][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-06 16:01:44.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:44.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:44.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:44.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:44.999][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-06 16:01:45.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-06 16:01:45.000][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-06 16:01:45.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:45.002][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:45.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:45.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-06 16:01:45.005][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/definitions.yml".
biodb.DEBUG[2025-12-06 16:01:45.014][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-12-06 16:01:45.016][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-12-06 16:01:45.017][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-12-06 16:01:45.018][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-12-06 16:01:45.019][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-12-06 16:01:45.020][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-12-06 16:01:45.021][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-12-06 16:01:45.022][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-12-06 16:01:45.023][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-12-06 16:01:45.024][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-12-06 16:01:45.025][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-12-06 16:01:45.026][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-12-06 16:01:45.027][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-12-06 16:01:45.028][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-12-06 16:01:45.029][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-12-06 16:01:45.029][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-12-06 16:01:45.029][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-12-06 16:01:45.029][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-12-06 16:01:45.029][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-12-06 16:01:45.029][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-12-06 16:01:45.029][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-12-06 16:01:45.029][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-12-06 16:01:45.029][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-12-06 16:01:45.029][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-12-06 16:01:45.029][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-12-06 16:01:45.030][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-12-06 16:01:45.031][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-12-06 16:01:45.031][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-12-06 16:01:45.031][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-12-06 16:01:45.032][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-12-06 16:01:45.033][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-12-06 16:01:45.034][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-12-06 16:01:45.034][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-12-06 16:01:45.035][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-12-06 16:01:45.036][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-12-06 16:01:45.037][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-12-06 16:01:45.038][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-12-06 16:01:45.038][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-12-06 16:01:45.039][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-12-06 16:01:45.040][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-12-06 16:01:45.041][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-12-06 16:01:45.042][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-12-06 16:01:45.042][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-12-06 16:01:45.047][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-12-06 16:01:45.049][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-12-06 16:01:45.050][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-12-06 16:01:45.052][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-12-06 16:01:45.053][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-12-06 16:01:45.054][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-12-06 16:01:45.076][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-12-06 16:01:45.090][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-12-06 16:01:45.099][biodb::testThat]
biodb.INFO [2025-12-06 16:01:45.099][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-12-06 16:01:45.100][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-06 16:01:45.101][biodb::testThat]
biodb.TRACE[2025-12-06 16:01:45.105][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-12-06 16:01:45.106][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-12-06 16:01:45.110][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-12-06 16:01:45.118][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-12-06 16:01:45.118][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-06 16:01:45.119][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-06 16:01:45.132][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:45.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:45.133][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:45.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-12-06 16:01:45.143][ef$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:45.144][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:45.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.146][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.148][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:45.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:45.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.163][ef$get] Asked field names are: charge.
biodb.TRACE[2025-12-06 16:01:45.164][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-06 16:01:45.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.165][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.199][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-06 16:01:45.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-06 16:01:45.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.203][ef$get] Asked field names are: formula.
biodb.TRACE[2025-12-06 16:01:45.204][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-06 16:01:45.205][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.206][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.207][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-06 16:01:45.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-06 16:01:45.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.211][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-12-06 16:01:45.212][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-06 16:01:45.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.213][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.215][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-06 16:01:45.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-06 16:01:45.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.218][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-06 16:01:45.219][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-06 16:01:45.220][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.221][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.222][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-06 16:01:45.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-06 16:01:45.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.226][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:45.227][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:45.228][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.229][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.230][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:45.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:45.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.234][ef$get] Asked field names are: mass.
biodb.TRACE[2025-12-06 16:01:45.235][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:45.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.237][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.238][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-12-06 16:01:45.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:45.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.242][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:45.243][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:45.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.245][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.246][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:45.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:45.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.250][ef$get] Asked field names are: name.
biodb.TRACE[2025-12-06 16:01:45.251][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-12-06 16:01:45.252][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.253][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.254][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-06 16:01:45.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-06 16:01:45.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.258][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-12-06 16:01:45.259][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-06 16:01:45.260][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.261][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.262][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-12-06 16:01:45.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-06 16:01:45.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.266][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-12-06 16:01:45.267][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-06 16:01:45.267][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.268][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.270][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-06 16:01:45.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-06 16:01:45.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.273][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:01:45.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:01:45.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.277][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:01:45.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:01:45.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:45.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:45.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.285][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:01:45.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:01:45.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:45.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:45.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:45.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:45.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:45.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:45.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:45.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:45.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.334][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:45.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:45.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:45.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:45.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-12-06 16:01:45.345][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-12-06 16:01:45.347][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-06 16:01:45.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-06 16:01:45.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.351][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-06 16:01:45.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-06 16:01:45.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.376][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-06 16:01:45.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-06 16:01:45.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.379][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-06 16:01:45.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-06 16:01:45.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.383][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:45.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:45.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.387][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:45.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:45.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.391][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-12-06 16:01:45.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-12-06 16:01:45.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.394][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-12-06 16:01:45.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-12-06 16:01:45.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.398][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-12-06 16:01:45.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-12-06 16:01:45.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.402][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-12-06 16:01:45.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-12-06 16:01:45.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.408][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:45.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:45.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.423][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:01:45.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:01:45.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.430][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:45.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:45.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.434][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:45.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:45.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.437][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:45.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:45.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:45.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:45.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:45.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:45.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:45.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:45.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.454][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:01:45.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:01:45.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.458][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:01:45.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:01:45.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.462][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:01:45.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:01:45.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:45.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:45.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.475][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:45.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:45.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:45.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:45.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.483][ef$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:45.484][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:45.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.520][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:45.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:45.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.532][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:01:45.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:01:45.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.535][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:01:45.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:01:45.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.539][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:01:45.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:01:45.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.543][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:01:45.544][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:01:45.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.546][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.547][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:01:45.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:01:45.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.557][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-06 16:01:45.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-06 16:01:45.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.561][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-06 16:01:45.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-06 16:01:45.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.565][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-06 16:01:45.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-06 16:01:45.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.569][ef$get] Asked field names are: name.
biodb.TRACE[2025-12-06 16:01:45.570][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-12-06 16:01:45.571][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.571][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.572][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-06 16:01:45.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-06 16:01:45.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.583][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-06 16:01:45.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-06 16:01:45.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.586][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-06 16:01:45.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-06 16:01:45.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.590][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-06 16:01:45.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-06 16:01:45.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.594][ef$get] Asked field names are: formula.
biodb.TRACE[2025-12-06 16:01:45.595][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-06 16:01:45.596][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.597][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.598][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-06 16:01:45.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-06 16:01:45.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.608][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:45.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:45.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.612][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:45.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:45.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.616][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:45.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:45.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.620][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:45.621][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:45.621][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.622][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.623][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:45.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:45.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.634][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:45.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:45.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.637][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:45.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:45.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.641][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:45.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:45.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.645][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:45.646][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:45.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.648][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.649][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:45.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:45.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.659][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-06 16:01:45.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-06 16:01:45.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.663][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-06 16:01:45.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-06 16:01:45.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.666][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-06 16:01:45.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-06 16:01:45.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.674][ef$get] Asked field names are: charge.
biodb.TRACE[2025-12-06 16:01:45.675][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-06 16:01:45.676][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.677][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.678][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-06 16:01:45.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-06 16:01:45.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.688][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-06 16:01:45.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-06 16:01:45.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.692][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-06 16:01:45.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-06 16:01:45.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.695][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-06 16:01:45.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-06 16:01:45.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.699][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-06 16:01:45.700][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-06 16:01:45.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.702][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.703][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-06 16:01:45.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-06 16:01:45.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.713][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:45.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:45.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.717][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:45.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:45.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.721][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:45.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:45.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.725][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:45.726][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:45.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.727][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.728][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:45.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:45.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.739][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-06 16:01:45.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-06 16:01:45.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.742][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-06 16:01:45.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-06 16:01:45.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.746][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-06 16:01:45.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-06 16:01:45.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.750][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-12-06 16:01:45.751][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-06 16:01:45.752][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.753][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.754][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-06 16:01:45.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-06 16:01:45.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.764][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-06 16:01:45.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-06 16:01:45.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.768][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-06 16:01:45.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-06 16:01:45.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.772][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-06 16:01:45.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-06 16:01:45.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.776][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-06 16:01:45.777][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-06 16:01:45.777][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.778][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.779][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-06 16:01:45.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-06 16:01:45.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.790][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-06 16:01:45.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-06 16:01:45.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.793][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-06 16:01:45.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-06 16:01:45.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.797][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-06 16:01:45.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-06 16:01:45.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.801][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-12-06 16:01:45.802][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-06 16:01:45.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.804][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.805][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-06 16:01:45.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-06 16:01:45.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.815][ef$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:45.816][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:45.817][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.818][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.826][ef$get] Asked field names are: charge.
biodb.TRACE[2025-12-06 16:01:45.827][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-06 16:01:45.828][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.829][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.833][ef$get] Asked field names are: formula.
biodb.TRACE[2025-12-06 16:01:45.834][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-06 16:01:45.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.836][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.840][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-12-06 16:01:45.841][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-06 16:01:45.842][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.843][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.847][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-06 16:01:45.848][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-06 16:01:45.849][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.849][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.853][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:45.854][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:45.855][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.856][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.860][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:45.861][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:45.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.863][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.867][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:45.868][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:45.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.870][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.874][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-06 16:01:45.875][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-06 16:01:45.876][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.877][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.880][ef$get] Asked field names are: name.
biodb.TRACE[2025-12-06 16:01:45.881][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-12-06 16:01:45.882][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.883][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.887][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-12-06 16:01:45.888][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-06 16:01:45.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.890][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.906][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-2528-content.xml".
biodb.DEBUG[2025-12-06 16:01:45.938][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-12-06 16:01:45.940][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-12-06 16:01:45.941][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-12-06 16:01:45.942][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-06 16:01:45.943][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-06 16:01:45.947][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:45.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:45.949][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:45.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-12-06 16:01:45.952][ef$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:45.953][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:45.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.955][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.956][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:45.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:45.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.979][ef$get] Asked field names are: charge.
biodb.TRACE[2025-12-06 16:01:45.980][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-06 16:01:45.981][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.982][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.983][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-06 16:01:45.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-06 16:01:45.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.987][ef$get] Asked field names are: formula.
biodb.TRACE[2025-12-06 16:01:45.988][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-06 16:01:45.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.990][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.991][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-06 16:01:45.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-06 16:01:45.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.995][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-12-06 16:01:45.996][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-06 16:01:45.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:45.998][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:45.999][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-06 16:01:46.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-06 16:01:46.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.003][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.004][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.005][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.006][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.007][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.011][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:46.012][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:46.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.014][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.015][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:46.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:46.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.019][ef$get] Asked field names are: mass.
biodb.TRACE[2025-12-06 16:01:46.020][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:46.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.022][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.023][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-12-06 16:01:46.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:46.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.027][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:46.028][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:46.029][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.030][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.031][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:46.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:46.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.035][ef$get] Asked field names are: name.
biodb.TRACE[2025-12-06 16:01:46.036][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-12-06 16:01:46.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.037][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.039][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-06 16:01:46.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-06 16:01:46.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.043][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-12-06 16:01:46.044][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-06 16:01:46.044][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.045][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.046][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-12-06 16:01:46.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-06 16:01:46.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.050][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-12-06 16:01:46.051][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-06 16:01:46.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.053][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.054][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-06 16:01:46.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-06 16:01:46.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.058][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.062][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.069][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.073][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.085][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-12-06 16:01:46.096][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 2528.
biodb.TRACE[2025-12-06 16:01:46.119][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-06 16:01:46.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-06 16:01:46.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.122][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-06 16:01:46.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-06 16:01:46.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.126][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.130][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.134][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:46.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:46.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.137][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:46.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:46.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.141][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-12-06 16:01:46.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-12-06 16:01:46.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.145][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-12-06 16:01:46.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-12-06 16:01:46.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.149][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-12-06 16:01:46.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-12-06 16:01:46.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.152][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-12-06 16:01:46.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-12-06 16:01:46.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.164][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.175][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.179][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.184][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.191][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.195][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.199][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.203][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.222][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.229][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.233][ef$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.234][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.236][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.237][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.248][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.251][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.255][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.259][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.260][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.261][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.262][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.263][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.277][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-06 16:01:46.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-06 16:01:46.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.281][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-06 16:01:46.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-06 16:01:46.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.285][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-06 16:01:46.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-06 16:01:46.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.288][ef$get] Asked field names are: name.
biodb.TRACE[2025-12-06 16:01:46.289][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-12-06 16:01:46.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.291][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.292][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-06 16:01:46.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-06 16:01:46.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.303][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-06 16:01:46.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-06 16:01:46.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.306][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-06 16:01:46.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-06 16:01:46.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.310][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-06 16:01:46.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-06 16:01:46.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.314][ef$get] Asked field names are: formula.
biodb.TRACE[2025-12-06 16:01:46.315][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-06 16:01:46.316][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.317][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.318][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-06 16:01:46.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-06 16:01:46.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.328][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-12-06 16:01:46.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:46.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.332][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:46.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:46.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.336][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:46.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:46.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.339][ef$get] Asked field names are: mass.
biodb.TRACE[2025-12-06 16:01:46.340][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:46.341][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.342][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.343][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-12-06 16:01:46.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:46.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.353][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:46.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:46.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.357][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:46.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:46.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.361][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:46.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:46.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.365][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:46.366][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:46.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.368][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.369][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:46.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:46.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.379][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:46.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:46.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.383][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:46.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:46.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.386][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:46.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:46.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.390][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:46.391][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:46.392][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.393][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.394][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:46.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:46.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.404][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-06 16:01:46.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-06 16:01:46.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.408][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-06 16:01:46.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-06 16:01:46.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.412][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-06 16:01:46.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-06 16:01:46.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.416][ef$get] Asked field names are: charge.
biodb.TRACE[2025-12-06 16:01:46.417][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-06 16:01:46.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.422][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.423][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-06 16:01:46.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-06 16:01:46.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.434][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-06 16:01:46.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-06 16:01:46.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.437][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-06 16:01:46.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-06 16:01:46.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.441][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-06 16:01:46.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-06 16:01:46.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.445][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-06 16:01:46.446][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-06 16:01:46.447][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.448][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.449][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-06 16:01:46.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-06 16:01:46.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.459][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:46.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:46.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.463][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:46.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:46.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.467][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:46.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:46.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.471][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:46.472][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:46.473][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.473][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.474][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:46.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:46.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.485][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-06 16:01:46.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-06 16:01:46.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.489][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-06 16:01:46.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-06 16:01:46.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.492][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-06 16:01:46.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-06 16:01:46.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.496][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-12-06 16:01:46.497][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-06 16:01:46.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.499][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.500][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-06 16:01:46.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-06 16:01:46.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.511][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.514][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.518][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.522][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.523][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.524][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.525][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.526][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.536][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-06 16:01:46.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-06 16:01:46.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.540][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-06 16:01:46.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-06 16:01:46.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.544][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-06 16:01:46.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-06 16:01:46.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.548][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-12-06 16:01:46.549][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-06 16:01:46.550][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.550][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.551][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-06 16:01:46.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-06 16:01:46.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.562][ef$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.563][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.565][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.569][ef$get] Asked field names are: charge.
biodb.TRACE[2025-12-06 16:01:46.570][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-06 16:01:46.571][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.575][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.579][ef$get] Asked field names are: formula.
biodb.TRACE[2025-12-06 16:01:46.580][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-06 16:01:46.581][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.582][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.586][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-12-06 16:01:46.587][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-06 16:01:46.588][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.588][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.592][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.593][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.594][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.595][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.599][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:46.600][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:46.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.602][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.606][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:46.607][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:46.607][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.608][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.612][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:46.613][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:46.614][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.615][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.619][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-06 16:01:46.620][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-06 16:01:46.621][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.622][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.625][ef$get] Asked field names are: name.
biodb.TRACE[2025-12-06 16:01:46.626][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-12-06 16:01:46.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.628][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.632][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-12-06 16:01:46.633][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-06 16:01:46.634][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.635][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.639][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-7799-content.xml".
biodb.DEBUG[2025-12-06 16:01:46.640][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-12-06 16:01:46.641][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-12-06 16:01:46.643][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-12-06 16:01:46.644][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-06 16:01:46.645][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-06 16:01:46.648][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:46.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:46.650][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:46.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-12-06 16:01:46.653][ef$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.654][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.655][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.656][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.657][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.661][ef$get] Asked field names are: charge.
biodb.TRACE[2025-12-06 16:01:46.662][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-06 16:01:46.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.664][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.665][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-06 16:01:46.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-06 16:01:46.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.669][ef$get] Asked field names are: formula.
biodb.TRACE[2025-12-06 16:01:46.670][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-06 16:01:46.671][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.672][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.673][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-06 16:01:46.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-06 16:01:46.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.677][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-12-06 16:01:46.678][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-06 16:01:46.679][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.680][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.681][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-06 16:01:46.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-06 16:01:46.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.685][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.686][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.688][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.689][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.693][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:46.694][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:46.695][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.695][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.697][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:46.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:46.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.700][ef$get] Asked field names are: mass.
biodb.TRACE[2025-12-06 16:01:46.702][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:46.702][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.703][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.704][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-12-06 16:01:46.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:46.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.708][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:46.709][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:46.710][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.711][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.712][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:46.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:46.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.716][ef$get] Asked field names are: name.
biodb.TRACE[2025-12-06 16:01:46.717][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-12-06 16:01:46.718][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.719][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.720][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-06 16:01:46.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-06 16:01:46.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.724][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-12-06 16:01:46.729][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-06 16:01:46.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.731][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.732][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-12-06 16:01:46.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-06 16:01:46.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.736][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-12-06 16:01:46.737][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-06 16:01:46.738][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.739][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.740][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-06 16:01:46.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-06 16:01:46.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.743][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.747][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.755][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.758][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.762][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.766][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.770][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.774][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-12-06 16:01:46.781][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 7799.
biodb.TRACE[2025-12-06 16:01:46.783][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-06 16:01:46.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-06 16:01:46.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.787][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-06 16:01:46.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-06 16:01:46.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.791][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.794][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.798][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:46.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:46.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.802][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:46.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:46.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.806][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-12-06 16:01:46.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-12-06 16:01:46.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.810][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-12-06 16:01:46.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-12-06 16:01:46.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.813][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-12-06 16:01:46.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-12-06 16:01:46.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.817][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-12-06 16:01:46.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-12-06 16:01:46.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.822][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.829][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.836][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.840][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.844][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.849][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.861][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.864][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.868][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:01:46.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.877][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.881][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.889][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.892][ef$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.893][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.894][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.895][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:46.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:46.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.907][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-06 16:01:46.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-06 16:01:46.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.910][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-06 16:01:46.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-06 16:01:46.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.914][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-06 16:01:46.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-06 16:01:46.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.918][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-12-06 16:01:46.919][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-06 16:01:46.920][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.921][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.922][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-06 16:01:46.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-06 16:01:46.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.933][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-06 16:01:46.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-06 16:01:46.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.936][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-06 16:01:46.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-06 16:01:46.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.940][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-06 16:01:46.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-06 16:01:46.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.944][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-12-06 16:01:46.945][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-06 16:01:46.946][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.947][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.948][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-06 16:01:46.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-06 16:01:46.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.959][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.962][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.966][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.970][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.971][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.973][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.974][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-06 16:01:46.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.985][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:46.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:46.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.989][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:46.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:46.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.992][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:46.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:46.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:46.996][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:46.997][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:46.998][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:46.999][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.000][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:47.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:47.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.010][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:47.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:47.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.014][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:47.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:47.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.018][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:47.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:47.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.022][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:47.023][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:47.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.024][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.025][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:47.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:47.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.039][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:47.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:47.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:47.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:47.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.047][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:47.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:47.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.051][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:47.052][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:47.053][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.053][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.054][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:47.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:47.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.065][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-06 16:01:47.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-06 16:01:47.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.068][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-06 16:01:47.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-06 16:01:47.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.072][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-06 16:01:47.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-06 16:01:47.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.076][ef$get] Asked field names are: charge.
biodb.TRACE[2025-12-06 16:01:47.077][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-06 16:01:47.078][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.079][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.080][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-06 16:01:47.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-06 16:01:47.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.091][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-06 16:01:47.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-06 16:01:47.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.094][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-06 16:01:47.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-06 16:01:47.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.098][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-06 16:01:47.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-06 16:01:47.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.102][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-06 16:01:47.103][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-06 16:01:47.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.105][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.106][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-06 16:01:47.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-06 16:01:47.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.116][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-06 16:01:47.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-06 16:01:47.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.120][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-06 16:01:47.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-06 16:01:47.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.124][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-06 16:01:47.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-06 16:01:47.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.128][ef$get] Asked field names are: name.
biodb.TRACE[2025-12-06 16:01:47.129][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-12-06 16:01:47.130][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.131][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.131][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-06 16:01:47.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-06 16:01:47.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.142][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-06 16:01:47.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-06 16:01:47.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.146][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-06 16:01:47.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-06 16:01:47.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.150][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-06 16:01:47.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-06 16:01:47.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.153][ef$get] Asked field names are: formula.
biodb.TRACE[2025-12-06 16:01:47.154][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-06 16:01:47.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.156][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.157][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-06 16:01:47.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-06 16:01:47.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.168][ef$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:01:47.169][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:01:47.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.171][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.175][ef$get] Asked field names are: charge.
biodb.TRACE[2025-12-06 16:01:47.176][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-06 16:01:47.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.178][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.182][ef$get] Asked field names are: formula.
biodb.TRACE[2025-12-06 16:01:47.183][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-06 16:01:47.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.184][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.192][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-12-06 16:01:47.193][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-06 16:01:47.194][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.195][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.199][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-06 16:01:47.200][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-06 16:01:47.200][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.201][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.205][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:47.206][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-06 16:01:47.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.208][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.212][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:47.213][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-06 16:01:47.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.214][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.218][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:47.219][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:01:47.220][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.221][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.225][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-06 16:01:47.226][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-06 16:01:47.227][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.228][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.232][ef$get] Asked field names are: name.
biodb.TRACE[2025-12-06 16:01:47.233][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-12-06 16:01:47.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.234][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:01:47.238][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-12-06 16:01:47.239][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-06 16:01:47.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:01:47.241][ef$get] fields variable is a list.
biodb.INFO [2025-12-06 16:01:47.247][biodb::testThat]
biodb.INFO [2025-12-06 16:01:47.248][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-12-06 16:01:47.249][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-06 16:01:47.250][biodb::testThat]
biodb.DEBUG[2025-12-06 16:01:47.252][private$loadEntries] Creating entries from ids [3]: "15440, 2528, 7799".
biodb.DEBUG[2025-12-06 16:01:47.255][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-12-06 16:01:47.258][cch$loadContents] Load 3 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2025-12-06 16:01:47.259][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-12-06 16:01:47.260][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-12-06 16:01:47.261][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-12-06 16:01:47.262][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-12-06 16:01:47.268][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-12-06 16:01:47.269][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-06 16:01:47.270][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-06 16:01:47.274][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:01:47.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:01:47.275][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:01:47.276][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".
sched.DEBUG[2025-12-06 16:01:47.278][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
fscache.INFO [2025-12-06 16:01:47.297][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2025-12-06 16:01:47.298][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-06 16:01:47.299][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-06 16:01:47.300][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-12-06 16:01:48.353][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2025-12-06 16:01:48.354][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-06 16:01:48.355][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[2025-12-06 16:01:48.356][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 [2025-12-06 16:01:49.119][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-12-06 16:01:49.120][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-06 16:01:49.121][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-06 16:01:49.122][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-12-06 16:01:49.599][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2025-12-06 16:01:49.601][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-06 16:01:49.603][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-06 16:01:49.606][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 [2025-12-06 16:01:50.392][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-12-06 16:01:50.393][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-06 16:01:50.394][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-06 16:01:50.395][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-12-06 16:01:51.214][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2025-12-06 16:01:51.215][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-06 16:01:51.216][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-06 16:01:51.217][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2025-12-06 16:01:52.151][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-12-06 16:01:52.152][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-06 16:01:52.153][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-06 16:01:52.154][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-12-06 16:01:52.626][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2025-12-06 16:01:52.627][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-06 16:01:52.628][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-06 16:01:52.629][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2025-12-06 16:01:53.387][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-12-06 16:01:53.388][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-06 16:01:53.389][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-06 16:01:53.390][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-12-06 16:01:53.863][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2025-12-06 16:01:53.883][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-06 16:01:53.885][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-06 16:01:53.886][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2025-12-06 16:01:54.644][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-12-06 16:01:54.646][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-06 16:01:54.647][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-06 16:01:54.648][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-12-06 16:01:55.163][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2025-12-06 16:01:55.164][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-06 16:01:55.165][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-06 16:01:55.166][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2025-12-06 16:01:55.924][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-12-06 16:01:55.926][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-06 16:01:55.927][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-06 16:01:55.928][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-12-06 16:01:56.399][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2025-12-06 16:01:56.401][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-06 16:01:56.402][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-06 16:01:56.403][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2025-12-06 16:01:57.161][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-12-06 16:01:57.163][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-06 16:01:57.164][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-06 16:01:57.165][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-12-06 16:01:57.634][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2025-12-06 16:01:57.635][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-06 16:01:57.636][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-06 16:01:57.637][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2025-12-06 16:01:58.396][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-12-06 16:01:58.398][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-06 16:01:58.399][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-06 16:01:58.400][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-12-06 16:01:58.873][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2025-12-06 16:01:58.874][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-06 16:01:58.875][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-06 16:01:58.876][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2025-12-06 16:01:59.508][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-12-06 16:01:59.509][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-06 16:01:59.510][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-06 16:01:59.511][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-12-06 16:01:59.988][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440 does not exist.
sched.TRACE[2025-12-06 16:01:59.990][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-06 16:01:59.991][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-06 16:01:59.992][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
sched.INFO [2025-12-06 16:02:00.623][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
biodb.DEBUG[2025-12-06 16:02:00.625][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-12-06 16:02:00.626][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-06 16:02:00.627][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-06 16:02:00.632][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:02:00.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:02:00.634][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:02:00.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-12-06 16:02:00.653][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
fscache.INFO [2025-12-06 16:02:00.684][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2025-12-06 16:02:00.700][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-06 16:02:00.702][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-06 16:02:00.703][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-12-06 16:02:01.174][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-12-06 16:02:01.175][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-06 16:02:01.176][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-06 16:02:01.177][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-12-06 16:02:01.967][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2025-12-06 16:02:01.970][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-06 16:02:01.972][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-06 16:02:01.975][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-12-06 16:02:02.452][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-12-06 16:02:02.453][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-06 16:02:02.455][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-06 16:02:02.459][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-12-06 16:02:03.093][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2025-12-06 16:02:03.094][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-06 16:02:03.095][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-06 16:02:03.096][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-12-06 16:02:03.571][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-12-06 16:02:03.573][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-06 16:02:03.575][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-06 16:02:03.577][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-12-06 16:02:04.340][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2025-12-06 16:02:04.342][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-06 16:02:04.345][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-06 16:02:04.348][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-12-06 16:02:04.828][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-12-06 16:02:04.830][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-06 16:02:04.833][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-06 16:02:04.835][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-12-06 16:02:05.625][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2025-12-06 16:02:05.626][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-06 16:02:05.627][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-06 16:02:05.628][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-12-06 16:02:06.102][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-12-06 16:02:06.103][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-06 16:02:06.104][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-06 16:02:06.105][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-12-06 16:02:06.863][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2025-12-06 16:02:06.865][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-06 16:02:06.866][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-06 16:02:06.867][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-12-06 16:02:07.341][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-12-06 16:02:07.344][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-06 16:02:07.346][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-06 16:02:07.348][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-12-06 16:02:08.142][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2025-12-06 16:02:08.145][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-06 16:02:08.147][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-06 16:02:08.150][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-12-06 16:02:08.634][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-12-06 16:02:08.636][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-06 16:02:08.638][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-06 16:02:08.641][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-12-06 16:02:09.403][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2025-12-06 16:02:09.405][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-06 16:02:09.407][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-06 16:02:09.410][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-12-06 16:02:09.886][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-12-06 16:02:09.888][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-06 16:02:09.889][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-06 16:02:09.890][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-12-06 16:02:10.648][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2025-12-06 16:02:10.649][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-06 16:02:10.650][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-06 16:02:10.652][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-12-06 16:02:11.122][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-12-06 16:02:11.123][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-06 16:02:11.124][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-06 16:02:11.125][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-12-06 16:02:11.885][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2025-12-06 16:02:11.886][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-06 16:02:11.887][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-06 16:02:11.888][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-12-06 16:02:12.361][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-12-06 16:02:12.362][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-06 16:02:12.363][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-06 16:02:12.364][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-12-06 16:02:13.123][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
biodb.DEBUG[2025-12-06 16:02:13.124][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-12-06 16:02:13.125][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-06 16:02:13.126][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-06 16:02:13.130][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:02:13.131][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:02:13.132][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:02:13.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-12-06 16:02:13.134][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
fscache.INFO [2025-12-06 16:02:13.136][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2025-12-06 16:02:13.137][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-06 16:02:13.138][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-06 16:02:13.139][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-12-06 16:02:13.613][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2025-12-06 16:02:13.615][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-06 16:02:13.617][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-06 16:02:13.619][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2025-12-06 16:02:14.379][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-12-06 16:02:14.380][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-06 16:02:14.381][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-06 16:02:14.382][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-12-06 16:02:14.856][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2025-12-06 16:02:14.857][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-06 16:02:14.858][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-06 16:02:14.859][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2025-12-06 16:02:15.623][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-12-06 16:02:15.626][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-06 16:02:15.628][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-06 16:02:15.631][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-12-06 16:02:16.150][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2025-12-06 16:02:16.152][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-06 16:02:16.153][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-06 16:02:16.154][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2025-12-06 16:02:16.789][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-12-06 16:02:16.790][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-06 16:02:16.791][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-06 16:02:16.792][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-12-06 16:02:17.265][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2025-12-06 16:02:17.267][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-06 16:02:17.270][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-06 16:02:17.272][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2025-12-06 16:02:18.063][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-12-06 16:02:18.064][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-06 16:02:18.065][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-06 16:02:18.066][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-12-06 16:02:18.543][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2025-12-06 16:02:18.545][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-06 16:02:18.547][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-06 16:02:18.549][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2025-12-06 16:02:19.317][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-12-06 16:02:19.320][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-06 16:02:19.322][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-06 16:02:19.325][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-12-06 16:02:19.801][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2025-12-06 16:02:19.802][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-06 16:02:19.803][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-06 16:02:19.804][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2025-12-06 16:02:20.435][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-12-06 16:02:20.436][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-06 16:02:20.437][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-06 16:02:20.438][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-12-06 16:02:20.952][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2025-12-06 16:02:20.953][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-06 16:02:20.954][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-06 16:02:20.955][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2025-12-06 16:02:21.718][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-12-06 16:02:21.721][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-06 16:02:21.723][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-06 16:02:21.726][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-12-06 16:02:22.202][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2025-12-06 16:02:22.205][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-06 16:02:22.207][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-06 16:02:22.210][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2025-12-06 16:02:23.004][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-12-06 16:02:23.007][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-06 16:02:23.008][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-06 16:02:23.009][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-12-06 16:02:23.525][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2025-12-06 16:02:23.527][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-06 16:02:23.530][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-06 16:02:23.532][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2025-12-06 16:02:24.328][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-12-06 16:02:24.331][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-06 16:02:24.333][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-06 16:02:24.336][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-12-06 16:02:24.813][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799 does not exist.
sched.TRACE[2025-12-06 16:02:24.815][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-06 16:02:24.817][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-06 16:02:24.820][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
sched.INFO [2025-12-06 16:02:25.615][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
fscache.INFO [2025-12-06 16:02:25.619][cch$saveContents] Save 3 contents to /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2025-12-06 16:02:25.621][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-12-06 16:02:25.624][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-12-06 16:02:25.627][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-12-06 16:02:25.630][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-12-06 16:02:25.632][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-06 16:02:25.634][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-06 16:02:25.644][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:02:25.646][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:02:25.648][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:02:25.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-12-06 16:02:25.654][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:02:25.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:02:25.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:02:25.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:02:25.662][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:02:25.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:02:25.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:02:25.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:02:25.669][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:02:25.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:02:25.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:02:25.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-12-06 16:02:25.675][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-12-06 16:02:25.676][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-06 16:02:25.678][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-06 16:02:25.684][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:02:25.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:02:25.686][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:02:25.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-12-06 16:02:25.689][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:02:25.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:02:25.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:02:25.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:02:25.694][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:02:25.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:02:25.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:02:25.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:02:25.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:02:25.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:02:25.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:02:25.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-12-06 16:02:25.702][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-12-06 16:02:25.703][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-06 16:02:25.704][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-06 16:02:25.708][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:02:25.709][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:02:25.710][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:02:25.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-12-06 16:02:25.712][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:02:25.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:02:25.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:02:25.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:02:25.716][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-06 16:02:25.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-06 16:02:25.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:02:25.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:02:25.720][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:02:25.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:02:25.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:02:25.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:02:25.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:02:25.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:02:25.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:02:25.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:02:25.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:02:25.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:02:25.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:02:25.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:02:25.732][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:02:25.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:02:25.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:02:25.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:02:25.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:02:25.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:02:25.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:02:25.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:02:25.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:02:25.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:02:25.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:02:25.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:02:25.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:02:25.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:02:25.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:02:25.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:02:25.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:02:25.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:02:25.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:02:25.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:02:25.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:02:25.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:02:25.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:02:25.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:02:25.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:02:25.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:02:25.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:02:25.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:02:25.758][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:02:25.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:02:25.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:02:25.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:02:25.762][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:02:25.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:02:25.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:02:25.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:02:25.766][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:02:25.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:02:25.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:02:25.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:02:25.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:02:25.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:02:25.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:02:25.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:02:25.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:02:25.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:02:25.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:02:25.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:02:25.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-06 16:02:25.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-06 16:02:25.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:02:25.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-12-06 16:02:25.781][self$createEntryFromContent] Accession numbers: NA, NA, NA.
biodb.DEBUG[2025-12-06 16:02:25.782][self$createEntryFromContent] Found 3 entry/ies without an accession number. Set it/them to NULL.
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2025-12-06 16:02:25.911][biodb::testThat]
biodb.INFO [2025-12-06 16:02:25.912][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-12-06 16:02:25.913][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-06 16:02:25.920][biodb::testThat]
biodb.TRACE[2025-12-06 16:02:25.923][ef$get] Asked field names are: name.
biodb.TRACE[2025-12-06 16:02:25.924][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-12-06 16:02:25.925][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:02:25.926][ef$get] fields variable is a list.
biodb.DEBUG[2025-12-06 16:02:25.927][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2025-12-06 16:02:26.146][biodb::testThat]
biodb.INFO [2025-12-06 16:02:26.147][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-12-06 16:02:26.148][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-06 16:02:26.149][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2025-12-06 16:02:26.248][biodb::testThat]
biodb.INFO [2025-12-06 16:02:26.249][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-12-06 16:02:26.250][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-06 16:02:26.251][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2025-12-06 16:02:26.346][biodb::testThat]
biodb.INFO [2025-12-06 16:02:26.347][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-12-06 16:02:26.348][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-06 16:02:26.349][biodb::testThat]
biodb.INFO [2025-12-06 16:02:26.357][biodb::testThat]
biodb.INFO [2025-12-06 16:02:26.358][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-12-06 16:02:26.359][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-06 16:02:26.360][biodb::testThat]
biodb.INFO [2025-12-06 16:02:26.366][biodb::testThat]
biodb.INFO [2025-12-06 16:02:26.367][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-12-06 16:02:26.368][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-06 16:02:26.369][biodb::testThat]
biodb.DEBUG[2025-12-06 16:02:26.372][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-12-06 16:02:26.972][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-12-06 16:02:27.456][biodb::testThat]
biodb.INFO [2025-12-06 16:02:27.457][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-12-06 16:02:27.458][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-06 16:02:27.459][biodb::testThat]
biodb.TRACE[2025-12-06 16:02:27.476][ef$get] Asked field names are: name.
biodb.TRACE[2025-12-06 16:02:27.477][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-12-06 16:02:27.478][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:02:27.479][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:02:27.480][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:02:27.481][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:02:27.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:02:27.509][ef$get] fields variable is a list.
biodb.INFO [2025-12-06 16:02:27.511][biodb::testThat]
biodb.INFO [2025-12-06 16:02:27.512][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-12-06 16:02:27.513][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-06 16:02:27.513][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2025-12-06 16:02:27.607][biodb::testThat]
biodb.INFO [2025-12-06 16:02:27.608][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-12-06 16:02:27.609][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-06 16:02:27.610][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2025-12-06 16:02:27.651][biodb::testThat]
biodb.INFO [2025-12-06 16:02:27.652][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-12-06 16:02:27.653][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-06 16:02:27.654][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2025-12-06 16:02:27.699][biodb::testThat]
biodb.INFO [2025-12-06 16:02:27.700][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-12-06 16:02:27.701][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-06 16:02:27.702][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.TRACE[2025-12-06 16:02:27.742][ef$get] Asked field names are: name.
biodb.TRACE[2025-12-06 16:02:27.743][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-12-06 16:02:27.744][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:02:27.745][ef$get] fields variable is a list.
biodb.TRACE[2025-12-06 16:02:27.746][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:02:27.747][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-06 16:02:27.748][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-06 16:02:27.749][ef$get] fields variable is a list.
biodb.INFO [2025-12-06 16:02:27.750][biodb::testThat]
biodb.INFO [2025-12-06 16:02:27.751][biodb::testThat] Running test function  test.annotateMzValues_real_values  (" annotateMzValues() works correctly with real values. ").
biodb.INFO [2025-12-06 16:02:27.752][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-06 16:02:27.753][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2025-12-06 16:02:27.799][biodb::testThat]
biodb.INFO [2025-12-06 16:02:27.800][biodb::testThat] Running test function  test_annotateMzValues_additional_fields  (" Additional fields are accepted in annotateMzValues() ").
biodb.INFO [2025-12-06 16:02:27.801][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-06 16:02:27.802][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2025-12-06 16:02:27.842][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-12-06 16:02:27.843][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-12-06 16:02:27.844][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-12-06 16:02:27.845][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-06 16:02:27.846][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-06 16:02:27.847][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-06 16:02:27.848][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-06 16:02:27.849][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-12-06 16:02:27.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 14 | WARN 0 | SKIP 1 | PASS 220 ]

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

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

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

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

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

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

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

'R CMD check' output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbChebi_1.17.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck’
* using R Under development (unstable) (2025-10-20 r88955)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
    GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.3 LTS
* using session charset: UTF-8
* using options ‘--no-codoc --no-examples --no-manual --ignore-vignettes --no-stop-on-test-error’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.17.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... SKIPPED
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... SKIPPED
* checking examples ... SKIPPED
* checking for unstated dependencies in ‘longtests’ ... OK
* checking tests in ‘longtests’ ...
  Running ‘testthat.R’
 ERROR
Running the tests in ‘longtests/testthat.R’ failed.
Last 13 lines of output:
   3.   └─base::vapply(entries, function(e) e$hasField(mf), FUN.VALUE = TRUE)
   4.     └─biodb (local) FUN(X[[i]], ...)
  ── Error ('test_long_100_generic.R:17:1'): Additional fields are accepted in annotateMzValues() ──
  Error in `e$hasField(mf)`: attempt to apply non-function
  Backtrace:
      ▆
   1. ├─base::do.call(fct, params)
   2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
   3.   └─base::vapply(entries, function(e) e$hasField(mf), FUN.VALUE = TRUE)
   4.     └─biodb (local) FUN(X[[i]], ...)
  
  [ FAIL 14 | WARN 0 | SKIP 1 | PASS 220 ]
  Error:
  ! Test failures.
  Execution halted
* DONE

Status: 1 ERROR
See
  ‘/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck/00check.log’
for details.

Installation output

biodbChebi.Rcheck/00install.out

* installing *source* package ‘biodbChebi’ ...
** this is package ‘biodbChebi’ version ‘1.17.0’
** 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)