Back to Long Tests report for BioC 3.23

This page was generated on 2025-12-20 23:55 -0500 (Sat, 20 Dec 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_64R Under development (unstable) (2025-10-20 r88955) -- "Unsuffered Consequences" 4878
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: 2025-12-20 09:55 -0500 (Sat, 20 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: 2025-12-20 16:01:06 -0500 (Sat, 20 Dec 2025)
EndedAt: 2025-12-20 16:02:30 -0500 (Sat, 20 Dec 2025)
EllapsedTime: 84.1 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 [2025-12-20 16:01:43.811][biodb::testContext]
biodb.INFO [2025-12-20 16:01:43.813][biodb::testContext] ********************************************************************************
biodb.INFO [2025-12-20 16:01:43.814][biodb::testContext] Test context - Generic long tests
biodb.INFO [2025-12-20 16:01:43.815][biodb::testContext] ********************************************************************************
biodb.INFO [2025-12-20 16:01:43.816][biodb::testContext]
biodb.INFO [2025-12-20 16:01:43.822][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.19.0.
biodb.DEBUG[2025-12-20 16:01:43.824][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.23-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-12-20 16:01:43.830][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-12-20 16:01:43.831][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-12-20 16:01:43.832][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-12-20 16:01:43.833][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:43.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:43.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-20 16:01:43.835][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-12-20 16:01:43.851][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-12-20 16:01:43.852][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:43.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:43.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-20 16:01:43.855][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-12-20 16:01:43.856][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-12-20 16:01:43.857][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:43.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:43.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-20 16:01:43.859][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-12-20 16:01:43.860][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-12-20 16:01:43.861][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-12-20 16:01:43.862][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:43.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:43.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-20 16:01:43.865][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-12-20 16:01:43.866][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-12-20 16:01:43.866][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-12-20 16:01:43.867][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:43.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:43.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-20 16:01:43.870][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-12-20 16:01:43.871][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-12-20 16:01:43.872][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:43.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:43.873][FUN] Functions in observer BiodbConfig: [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[2025-12-20 16:01:43.874][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-12-20 16:01:43.875][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-12-20 16:01:43.876][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-12-20 16:01:43.877][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:43.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:43.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-20 16:01:43.880][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-12-20 16:01:43.881][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-12-20 16:01:43.881][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:43.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:43.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-20 16:01:43.884][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-12-20 16:01:43.885][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-12-20 16:01:43.886][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-12-20 16:01:43.887][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:43.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:43.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-20 16:01:43.889][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-12-20 16:01:43.890][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-12-20 16:01:43.891][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-12-20 16:01:43.892][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-12-20 16:01:43.893][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-12-20 16:01:43.894][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-12-20 16:01:43.895][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:43.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:43.897][FUN] Functions in observer BiodbConfig: [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[2025-12-20 16:01:43.897][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-12-20 16:01:43.898][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-12-20 16:01:43.899][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:43.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:43.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-20 16:01:43.902][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-12-20 16:01:43.903][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-12-20 16:01:43.904][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:43.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:43.905][FUN] Functions in observer BiodbConfig: [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[2025-12-20 16:01:43.906][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-12-20 16:01:43.907][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-12-20 16:01:43.908][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:43.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:43.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-20 16:01:43.911][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-12-20 16:01:43.912][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-12-20 16:01:43.913][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-12-20 16:01:43.913][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:43.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:43.915][FUN] Functions in observer BiodbConfig: [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[2025-12-20 16:01:43.916][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-12-20 16:01:43.917][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-12-20 16:01:43.920][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-12-20 16:01:43.921][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:43.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:43.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-20 16:01:43.924][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-12-20 16:01:43.925][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-12-20 16:01:43.926][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-12-20 16:01:43.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:43.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:43.928][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[2025-12-20 16:01:43.931][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-12-20 16:01:43.962][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-12-20 16:01:43.978][self$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[2025-12-20 16:01:43.979][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-12-20 16:01:43.980][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-12-20 16:01:43.981][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-12-20 16:01:43.982][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-12-20 16:01:43.983][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-12-20 16:01:43.984][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-12-20 16:01:43.985][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-12-20 16:01:43.986][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-12-20 16:01:43.987][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-12-20 16:01:43.988][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-12-20 16:01:43.989][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-12-20 16:01:43.990][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-12-20 16:01:43.990][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-12-20 16:01:43.991][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-12-20 16:01:43.991][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-12-20 16:01:43.991][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-12-20 16:01:43.991][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-12-20 16:01:43.991][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-12-20 16:01:43.992][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-12-20 16:01:43.993][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-12-20 16:01:43.994][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-12-20 16:01:43.995][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-12-20 16:01:43.996][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-12-20 16:01:44.003][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-12-20 16:01:44.004][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-12-20 16:01:44.005][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-12-20 16:01:44.006][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-12-20 16:01:44.007][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-12-20 16:01:44.008][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-12-20 16:01:44.009][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-12-20 16:01:44.010][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-12-20 16:01:44.012][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-12-20 16:01:44.013][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-12-20 16:01:44.013][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-12-20 16:01:44.014][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-12-20 16:01:44.015][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-12-20 16:01:44.016][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-12-20 16:01:44.017][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-12-20 16:01:44.018][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-12-20 16:01:44.019][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-12-20 16:01:44.020][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-12-20 16:01:44.021][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-12-20 16:01:44.022][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-12-20 16:01:44.023][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-12-20 16:01:44.024][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-12-20 16:01:44.025][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-12-20 16:01:44.026][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-12-20 16:01:44.026][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-12-20 16:01:44.026][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-12-20 16:01:44.026][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-12-20 16:01:44.026][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-12-20 16:01:44.027][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-12-20 16:01:44.028][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-12-20 16:01:44.029][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-12-20 16:01:44.030][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-12-20 16:01:44.030][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-12-20 16:01:44.031][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-12-20 16:01:44.032][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-12-20 16:01:44.033][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-12-20 16:01:44.034][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-12-20 16:01:44.035][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-12-20 16:01:44.036][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-12-20 16:01:44.037][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-12-20 16:01:44.038][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-12-20 16:01:44.040][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-12-20 16:01:44.041][self$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[2025-12-20 16:01:44.042][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-12-20 16:01:44.043][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-12-20 16:01:44.044][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-12-20 16:01:44.045][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-12-20 16:01:44.046][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-12-20 16:01:44.046][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-12-20 16:01:44.047][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-12-20 16:01:44.048][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-12-20 16:01:44.049][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-12-20 16:01:44.050][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-12-20 16:01:44.051][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-12-20 16:01:44.052][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-12-20 16:01:44.053][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-12-20 16:01:44.054][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-12-20 16:01:44.055][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-12-20 16:01:44.056][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-12-20 16:01:44.057][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-12-20 16:01:44.058][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-12-20 16:01:44.059][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-12-20 16:01:44.059][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-12-20 16:01:44.060][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-12-20 16:01:44.061][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-12-20 16:01:44.062][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-12-20 16:01:44.063][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-12-20 16:01:44.064][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-12-20 16:01:44.065][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-12-20 16:01:44.066][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-12-20 16:01:44.068][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-12-20 16:01:44.069][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-12-20 16:01:44.070][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-12-20 16:01:44.071][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-12-20 16:01:44.071][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-12-20 16:01:44.072][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-12-20 16:01:44.073][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-12-20 16:01:44.074][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-12-20 16:01:44.075][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-12-20 16:01:44.076][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-12-20 16:01:44.077][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-12-20 16:01:44.078][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-12-20 16:01:44.079][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-12-20 16:01:44.080][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-12-20 16:01:44.081][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-12-20 16:01:44.082][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-12-20 16:01:44.083][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-12-20 16:01:44.084][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-12-20 16:01:44.085][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-12-20 16:01:44.085][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-12-20 16:01:44.086][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-12-20 16:01:44.087][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-12-20 16:01:44.088][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-12-20 16:01:44.089][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-12-20 16:01:44.090][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-12-20 16:01:44.091][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-12-20 16:01:44.092][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-12-20 16:01:44.093][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-12-20 16:01:44.096][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-12-20 16:01:44.097][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:44.098][FUN] Functions in observer BiodbConfig: [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[2025-12-20 16:01:44.099][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:44.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:44.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:44.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:44.102][FUN] Functions in observer BiodbConfig: [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[2025-12-20 16:01:44.103][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:44.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:44.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:44.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:44.107][FUN] Functions in observer BiodbConfig: [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[2025-12-20 16:01:44.108][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:44.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:44.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:44.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:44.111][FUN] Functions in observer BiodbConfig: [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[2025-12-20 16:01:44.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:44.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:44.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:44.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:44.115][FUN] Functions in observer BiodbConfig: [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[2025-12-20 16:01:44.116][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:44.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:44.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:44.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:44.120][FUN] Functions in observer BiodbConfig: [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[2025-12-20 16:01:44.120][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:44.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:44.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:44.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:44.124][FUN] Functions in observer BiodbConfig: [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[2025-12-20 16:01:44.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:44.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:44.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:44.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:44.128][FUN] Functions in observer BiodbConfig: [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[2025-12-20 16:01:44.129][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:44.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:44.131][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:44.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:44.132][FUN] Functions in observer BiodbConfig: [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[2025-12-20 16:01:44.133][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:44.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:44.135][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:44.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:44.136][FUN] Functions in observer BiodbConfig: [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[2025-12-20 16:01:44.137][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:44.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:44.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:44.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:44.148][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-20 16:01:44.150][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:44.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:44.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:44.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:44.154][FUN] Functions in observer BiodbConfig: [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[2025-12-20 16:01:44.155][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:44.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:44.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:44.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:44.159][FUN] Functions in observer BiodbConfig: [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[2025-12-20 16:01:44.160][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:44.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:44.162][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:44.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:44.164][FUN] Functions in observer BiodbConfig: [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[2025-12-20 16:01:44.165][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:44.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:44.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:44.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:44.169][FUN] Functions in observer BiodbConfig: [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[2025-12-20 16:01:44.170][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:44.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:44.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:44.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:44.174][FUN] Functions in observer BiodbConfig: [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[2025-12-20 16:01:44.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:44.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:44.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:44.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:44.179][FUN] Functions in observer BiodbConfig: [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[2025-12-20 16:01:44.180][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-12-20 16:01:44.186][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-12-20 16:01:44.188][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-12-20 16:01:44.189][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-12-20 16:01:44.190][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-12-20 16:01:44.192][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-12-20 16:01:44.193][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-12-20 16:01:44.195][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-12-20 16:01:44.196][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-12-20 16:01:44.198][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-12-20 16:01:44.199][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-12-20 16:01:44.201][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-12-20 16:01:44.202][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-12-20 16:01:44.203][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-12-20 16:01:44.205][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-12-20 16:01:44.206][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-12-20 16:01:44.208][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-12-20 16:01:44.209][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-12-20 16:01:44.228][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-12-20 16:01:44.230][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-12-20 16:01:44.231][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-12-20 16:01:44.233][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-12-20 16:01:44.234][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-12-20 16:01:44.235][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-12-20 16:01:44.237][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-12-20 16:01:44.238][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-12-20 16:01:44.240][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-12-20 16:01:44.241][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-12-20 16:01:44.242][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-12-20 16:01:44.244][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-12-20 16:01:44.245][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-12-20 16:01:44.247][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-12-20 16:01:44.248][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-12-20 16:01:44.250][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-12-20 16:01:44.251][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-12-20 16:01:44.253][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-12-20 16:01:44.254][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-12-20 16:01:44.256][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-12-20 16:01:44.257][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-12-20 16:01:44.258][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-12-20 16:01:44.260][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-12-20 16:01:44.261][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-12-20 16:01:44.263][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-12-20 16:01:44.265][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-12-20 16:01:44.266][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-12-20 16:01:44.268][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-12-20 16:01:44.269][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-12-20 16:01:44.270][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-12-20 16:01:44.272][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-12-20 16:01:44.273][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-12-20 16:01:44.275][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-12-20 16:01:44.276][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-12-20 16:01:44.278][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-12-20 16:01:44.279][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-12-20 16:01:44.280][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-12-20 16:01:44.282][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-12-20 16:01:44.283][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-12-20 16:01:44.285][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-12-20 16:01:44.286][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-12-20 16:01:44.287][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-12-20 16:01:44.289][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-12-20 16:01:44.290][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-12-20 16:01:44.292][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-12-20 16:01:44.293][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-12-20 16:01:44.294][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-12-20 16:01:44.296][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-12-20 16:01:44.297][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-12-20 16:01:44.299][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-12-20 16:01:44.300][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-12-20 16:01:44.301][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-12-20 16:01:44.303][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-12-20 16:01:44.304][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-12-20 16:01:44.306][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-12-20 16:01:44.307][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-12-20 16:01:44.309][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-12-20 16:01:44.310][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-12-20 16:01:44.311][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-12-20 16:01:44.313][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-12-20 16:01:44.314][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-12-20 16:01:44.316][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-12-20 16:01:44.317][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-12-20 16:01:44.319][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-12-20 16:01:44.320][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-12-20 16:01:44.326][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-12-20 16:01:44.328][initialize] This is biodb version 1.19.0.
biodb.DEBUG[2025-12-20 16:01:44.332][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-12-20 16:01:44.333][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:44.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:44.334][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:44.335][FUN] Functions in observer BiodbConfig: [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[2025-12-20 16:01:44.340][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:44.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-20 16:01:44.342][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-20 16:01:44.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:44.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:44.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:44.346][FUN] Functions in observer BiodbConfig: [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[2025-12-20 16:01:44.347][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:44.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-20 16:01:44.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-20 16:01:44.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:44.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:44.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:44.352][FUN] Functions in observer BiodbConfig: [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[2025-12-20 16:01:44.353][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:44.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-20 16:01:44.355][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-20 16:01:44.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:44.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:44.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:44.359][FUN] Functions in observer BiodbConfig: [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[2025-12-20 16:01:44.360][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:44.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-20 16:01:44.362][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-20 16:01:44.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:44.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:44.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:44.365][FUN] Functions in observer BiodbConfig: [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[2025-12-20 16:01:44.366][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:44.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-20 16:01:44.368][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-20 16:01:44.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:44.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:44.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:44.372][FUN] Functions in observer BiodbConfig: [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[2025-12-20 16:01:44.372][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:44.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-20 16:01:44.374][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-20 16:01:44.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:44.376][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:44.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:44.378][FUN] Functions in observer BiodbConfig: [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[2025-12-20 16:01:44.378][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:44.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-20 16:01:44.380][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-20 16:01:44.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:44.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:44.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:44.383][FUN] Functions in observer BiodbConfig: [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[2025-12-20 16:01:44.384][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:44.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-20 16:01:44.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-20 16:01:44.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:44.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:44.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:44.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-20 16:01:44.390][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:44.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-20 16:01:44.392][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-20 16:01:44.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:44.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:44.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:44.395][FUN] Functions in observer BiodbConfig: [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[2025-12-20 16:01:44.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:44.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-20 16:01:44.398][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-20 16:01:44.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:44.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:44.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:44.401][FUN] Functions in observer BiodbConfig: [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[2025-12-20 16:01:44.402][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:44.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-20 16:01:44.404][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-20 16:01:44.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:44.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:44.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:44.407][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-20 16:01:44.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:44.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-20 16:01:44.410][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-20 16:01:44.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:44.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:44.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:44.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-12-20 16:01:44.414][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:44.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-20 16:01:44.415][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-20 16:01:44.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:44.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:44.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:44.419][FUN] Functions in observer BiodbConfig: [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[2025-12-20 16:01:44.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:44.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-20 16:01:44.426][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-20 16:01:44.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:44.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:44.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:44.429][FUN] Functions in observer BiodbConfig: [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[2025-12-20 16:01:44.430][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:44.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-20 16:01:44.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-20 16:01:44.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:44.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:44.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:44.435][FUN] Functions in observer BiodbConfig: [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[2025-12-20 16:01:44.436][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-12-20 16:01:44.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-20 16:01:44.437][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-20 16:01:44.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:44.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:44.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:44.441][FUN] Functions in observer BiodbConfig: [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[2025-12-20 16:01:44.442][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/definitions.yml".
biodb.DEBUG[2025-12-20 16:01:44.451][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-12-20 16:01:44.453][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-12-20 16:01:44.454][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-12-20 16:01:44.455][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-12-20 16:01:44.456][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-12-20 16:01:44.457][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-12-20 16:01:44.458][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-12-20 16:01:44.459][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-12-20 16:01:44.460][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-12-20 16:01:44.461][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-12-20 16:01:44.462][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-12-20 16:01:44.463][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-12-20 16:01:44.463][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-12-20 16:01:44.464][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-12-20 16:01:44.465][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-12-20 16:01:44.465][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-12-20 16:01:44.465][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-12-20 16:01:44.465][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-12-20 16:01:44.465][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-12-20 16:01:44.465][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-12-20 16:01:44.465][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-12-20 16:01:44.465][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-12-20 16:01:44.465][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-12-20 16:01:44.465][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-12-20 16:01:44.465][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-12-20 16:01:44.467][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-12-20 16:01:44.468][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-12-20 16:01:44.468][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-12-20 16:01:44.468][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-12-20 16:01:44.468][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-12-20 16:01:44.469][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-12-20 16:01:44.470][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-12-20 16:01:44.471][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-12-20 16:01:44.472][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-12-20 16:01:44.473][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-12-20 16:01:44.474][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-12-20 16:01:44.475][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-12-20 16:01:44.475][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-12-20 16:01:44.476][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-12-20 16:01:44.476][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-12-20 16:01:44.477][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-12-20 16:01:44.478][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-12-20 16:01:44.478][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-12-20 16:01:44.484][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-12-20 16:01:44.485][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-12-20 16:01:44.487][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-12-20 16:01:44.488][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-12-20 16:01:44.490][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-12-20 16:01:44.491][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-12-20 16:01:44.512][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-12-20 16:01:44.527][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-12-20 16:01:44.535][biodb::testThat]
biodb.INFO [2025-12-20 16:01:44.536][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-12-20 16:01:44.536][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-20 16:01:44.537][biodb::testThat]
biodb.TRACE[2025-12-20 16:01:44.541][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-12-20 16:01:44.542][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-12-20 16:01:44.546][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-12-20 16:01:44.553][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-12-20 16:01:44.554][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-20 16:01:44.555][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-20 16:01:44.567][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:44.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:44.569][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:44.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-12-20 16:01:44.579][ef$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:44.580][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:44.581][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.582][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:44.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:44.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.598][ef$get] Asked field names are: charge.
biodb.TRACE[2025-12-20 16:01:44.599][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-20 16:01:44.600][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.601][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.634][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-20 16:01:44.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-20 16:01:44.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.638][ef$get] Asked field names are: formula.
biodb.TRACE[2025-12-20 16:01:44.639][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-20 16:01:44.640][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.641][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.642][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-20 16:01:44.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-20 16:01:44.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.646][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-12-20 16:01:44.647][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-20 16:01:44.648][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.649][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.650][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-20 16:01:44.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-20 16:01:44.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.654][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-20 16:01:44.655][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-20 16:01:44.656][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.657][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.658][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-20 16:01:44.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-20 16:01:44.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.662][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:44.663][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:44.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.664][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.666][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:44.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:44.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.670][ef$get] Asked field names are: mass.
biodb.TRACE[2025-12-20 16:01:44.671][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:44.671][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.672][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.673][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-12-20 16:01:44.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:44.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.677][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:44.678][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:44.679][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.680][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.681][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:44.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:44.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.685][ef$get] Asked field names are: name.
biodb.TRACE[2025-12-20 16:01:44.686][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-12-20 16:01:44.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.688][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.689][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-20 16:01:44.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-20 16:01:44.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.693][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-12-20 16:01:44.694][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-20 16:01:44.695][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.696][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.697][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-12-20 16:01:44.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-20 16:01:44.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.701][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-12-20 16:01:44.702][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-20 16:01:44.703][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.703][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.705][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-20 16:01:44.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-20 16:01:44.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.709][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:01:44.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:01:44.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.712][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:01:44.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:01:44.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:44.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:44.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.720][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:01:44.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:01:44.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:44.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:44.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:44.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:44.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:44.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:44.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:44.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:44.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:44.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:44.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.772][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:44.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:44.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-12-20 16:01:44.780][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-12-20 16:01:44.782][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-20 16:01:44.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-20 16:01:44.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.786][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-20 16:01:44.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-20 16:01:44.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.810][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-20 16:01:44.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-20 16:01:44.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.814][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-20 16:01:44.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-20 16:01:44.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.818][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:44.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:44.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.822][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:44.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:44.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.825][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-12-20 16:01:44.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-12-20 16:01:44.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.829][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-12-20 16:01:44.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-12-20 16:01:44.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.833][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-12-20 16:01:44.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-12-20 16:01:44.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.837][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-12-20 16:01:44.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-12-20 16:01:44.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.843][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:44.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:44.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.858][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:01:44.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:01:44.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.865][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:44.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:44.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.869][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:44.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:44.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:44.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:44.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:44.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:44.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:44.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:44.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:44.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:44.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.889][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:01:44.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:01:44.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.893][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:01:44.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:01:44.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.897][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:01:44.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:01:44.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.906][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:44.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:44.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:44.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:44.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.914][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:44.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:44.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.918][ef$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:44.919][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:44.920][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.921][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:44.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:44.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.967][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:01:44.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:01:44.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.970][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:01:44.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:01:44.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.974][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:01:44.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:01:44.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.978][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:01:44.979][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:01:44.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.981][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.982][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:01:44.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:01:44.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.992][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-20 16:01:44.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-20 16:01:44.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:44.996][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-20 16:01:44.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-20 16:01:44.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:44.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.000][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-20 16:01:45.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-20 16:01:45.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.003][ef$get] Asked field names are: name.
biodb.TRACE[2025-12-20 16:01:45.004][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-12-20 16:01:45.005][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.006][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.007][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-20 16:01:45.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-20 16:01:45.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.018][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-20 16:01:45.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-20 16:01:45.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.021][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-20 16:01:45.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-20 16:01:45.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.025][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-20 16:01:45.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-20 16:01:45.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.029][ef$get] Asked field names are: formula.
biodb.TRACE[2025-12-20 16:01:45.030][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-20 16:01:45.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.032][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.033][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-20 16:01:45.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-20 16:01:45.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.043][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:45.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:45.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.047][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:45.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:45.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.051][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:45.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:45.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.055][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:45.056][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:45.056][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.057][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.058][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:45.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:45.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.069][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:45.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:45.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.072][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:45.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:45.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.076][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:45.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:45.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.080][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:45.081][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:45.082][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.083][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.084][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:45.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:45.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.094][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-20 16:01:45.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-20 16:01:45.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.098][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-20 16:01:45.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-20 16:01:45.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.102][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-20 16:01:45.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-20 16:01:45.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.105][ef$get] Asked field names are: charge.
biodb.TRACE[2025-12-20 16:01:45.106][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-20 16:01:45.107][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.112][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.113][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-20 16:01:45.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-20 16:01:45.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.123][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-20 16:01:45.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-20 16:01:45.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.127][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-20 16:01:45.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-20 16:01:45.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.130][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-20 16:01:45.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-20 16:01:45.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.134][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-20 16:01:45.135][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-20 16:01:45.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.137][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.138][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-20 16:01:45.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-20 16:01:45.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.148][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:45.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:45.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.152][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:45.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:45.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.156][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:45.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:45.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.160][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:45.161][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:45.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.162][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.163][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:45.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:45.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.174][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-20 16:01:45.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-20 16:01:45.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.178][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-20 16:01:45.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-20 16:01:45.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.181][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-20 16:01:45.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-20 16:01:45.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.185][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-12-20 16:01:45.186][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-20 16:01:45.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.188][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.189][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-20 16:01:45.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-20 16:01:45.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.199][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-20 16:01:45.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-20 16:01:45.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.203][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-20 16:01:45.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-20 16:01:45.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.207][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-20 16:01:45.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-20 16:01:45.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.211][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-20 16:01:45.212][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-20 16:01:45.213][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.213][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.214][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-20 16:01:45.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-20 16:01:45.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.225][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-20 16:01:45.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-20 16:01:45.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.228][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-20 16:01:45.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-20 16:01:45.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.232][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-20 16:01:45.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-20 16:01:45.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.236][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-12-20 16:01:45.237][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-20 16:01:45.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.239][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.240][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-20 16:01:45.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-20 16:01:45.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.250][ef$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:45.251][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:45.252][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.253][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.257][ef$get] Asked field names are: charge.
biodb.TRACE[2025-12-20 16:01:45.258][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-20 16:01:45.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.259][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.267][ef$get] Asked field names are: formula.
biodb.TRACE[2025-12-20 16:01:45.268][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-20 16:01:45.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.270][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.274][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-12-20 16:01:45.275][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-20 16:01:45.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.276][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.280][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-20 16:01:45.281][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-20 16:01:45.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.283][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.287][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:45.288][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:45.289][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.289][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.293][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:45.294][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:45.295][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.296][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.300][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:45.301][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:45.302][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.303][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.306][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-20 16:01:45.307][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-20 16:01:45.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.309][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.313][ef$get] Asked field names are: name.
biodb.TRACE[2025-12-20 16:01:45.314][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-12-20 16:01:45.315][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.316][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.320][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-12-20 16:01:45.321][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-20 16:01:45.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.322][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.338][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-2528-content.xml".
biodb.DEBUG[2025-12-20 16:01:45.370][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-12-20 16:01:45.372][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-12-20 16:01:45.373][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-12-20 16:01:45.374][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-20 16:01:45.375][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-20 16:01:45.379][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:45.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:45.381][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:45.382][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-12-20 16:01:45.384][ef$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:45.385][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:45.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.386][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:45.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:45.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.410][ef$get] Asked field names are: charge.
biodb.TRACE[2025-12-20 16:01:45.411][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-20 16:01:45.412][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.413][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.414][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-20 16:01:45.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-20 16:01:45.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.418][ef$get] Asked field names are: formula.
biodb.TRACE[2025-12-20 16:01:45.419][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-20 16:01:45.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.421][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.422][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-20 16:01:45.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-20 16:01:45.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.426][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-12-20 16:01:45.427][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-20 16:01:45.428][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.429][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.430][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-20 16:01:45.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-20 16:01:45.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.434][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-20 16:01:45.435][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-20 16:01:45.436][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.437][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.438][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-20 16:01:45.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-20 16:01:45.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.442][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:45.443][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:45.444][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.444][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.446][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:45.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:45.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.449][ef$get] Asked field names are: mass.
biodb.TRACE[2025-12-20 16:01:45.450][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:45.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.452][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.453][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-12-20 16:01:45.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:45.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.457][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:45.458][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:45.459][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.460][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.461][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:45.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:45.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.465][ef$get] Asked field names are: name.
biodb.TRACE[2025-12-20 16:01:45.466][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-12-20 16:01:45.467][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.468][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.469][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-20 16:01:45.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-20 16:01:45.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.473][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-12-20 16:01:45.474][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-20 16:01:45.475][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.476][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.477][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-12-20 16:01:45.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-20 16:01:45.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.481][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-12-20 16:01:45.482][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-20 16:01:45.483][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.483][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.485][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-20 16:01:45.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-20 16:01:45.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.489][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:01:45.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:01:45.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.492][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:01:45.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:01:45.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.496][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:45.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:45.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.500][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:01:45.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:01:45.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:45.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:45.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.507][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:45.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:45.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:45.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:45.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:45.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:45.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:45.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:45.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.523][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:45.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:45.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-12-20 16:01:45.526][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 2528.
biodb.TRACE[2025-12-20 16:01:45.546][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-20 16:01:45.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-20 16:01:45.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.553][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-20 16:01:45.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-20 16:01:45.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.557][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-20 16:01:45.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-20 16:01:45.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.561][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-20 16:01:45.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-20 16:01:45.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.565][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:45.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:45.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.568][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:45.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:45.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.572][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-12-20 16:01:45.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-12-20 16:01:45.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.576][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-12-20 16:01:45.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-12-20 16:01:45.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.579][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-12-20 16:01:45.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-12-20 16:01:45.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.583][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-12-20 16:01:45.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-12-20 16:01:45.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.588][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:45.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:45.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.595][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:01:45.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:01:45.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:45.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:45.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.606][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:45.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:45.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:45.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:45.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:45.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:45.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.618][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:45.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:45.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.622][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:45.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:45.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.626][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:01:45.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:01:45.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.630][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:01:45.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:01:45.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.633][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:01:45.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:01:45.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.652][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:45.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:45.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:45.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:45.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.659][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:45.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:45.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.663][ef$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:45.664][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:45.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.666][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.667][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:45.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:45.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.677][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:01:45.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:01:45.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.681][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:01:45.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:01:45.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.684][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:01:45.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:01:45.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.688][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:01:45.689][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:01:45.690][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.691][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.692][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:01:45.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:01:45.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.706][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-20 16:01:45.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-20 16:01:45.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.710][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-20 16:01:45.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-20 16:01:45.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.713][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-20 16:01:45.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-20 16:01:45.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.717][ef$get] Asked field names are: name.
biodb.TRACE[2025-12-20 16:01:45.718][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-12-20 16:01:45.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.720][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.721][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-20 16:01:45.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-20 16:01:45.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.731][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-20 16:01:45.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-20 16:01:45.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.735][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-20 16:01:45.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-20 16:01:45.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.739][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-20 16:01:45.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-20 16:01:45.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.742][ef$get] Asked field names are: formula.
biodb.TRACE[2025-12-20 16:01:45.744][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-20 16:01:45.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.746][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.747][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-20 16:01:45.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-20 16:01:45.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.758][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-12-20 16:01:45.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:45.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.761][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:45.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:45.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.765][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:45.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:45.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.769][ef$get] Asked field names are: mass.
biodb.TRACE[2025-12-20 16:01:45.770][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:45.771][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.772][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.773][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-12-20 16:01:45.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:45.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.783][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:45.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:45.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.787][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:45.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:45.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.791][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:45.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:45.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.795][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:45.796][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:45.797][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.798][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.798][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:45.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:45.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.809][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:45.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:45.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.813][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:45.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:45.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.816][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:45.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:45.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.820][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:45.821][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:45.822][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.823][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.824][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:45.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:45.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.834][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-20 16:01:45.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-20 16:01:45.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.838][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-20 16:01:45.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-20 16:01:45.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.842][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-20 16:01:45.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-20 16:01:45.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.846][ef$get] Asked field names are: charge.
biodb.TRACE[2025-12-20 16:01:45.847][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-20 16:01:45.848][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.848][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.849][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-20 16:01:45.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-20 16:01:45.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.864][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-20 16:01:45.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-20 16:01:45.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.868][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-20 16:01:45.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-20 16:01:45.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.871][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-20 16:01:45.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-20 16:01:45.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.875][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-20 16:01:45.876][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-20 16:01:45.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.878][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.879][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-20 16:01:45.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-20 16:01:45.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.889][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:45.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:45.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.893][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:45.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:45.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.897][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:45.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:45.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.901][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:45.902][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:45.903][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.903][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.904][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:45.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:45.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.915][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-20 16:01:45.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-20 16:01:45.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.919][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-20 16:01:45.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-20 16:01:45.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.922][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-20 16:01:45.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-20 16:01:45.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.926][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-12-20 16:01:45.927][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-20 16:01:45.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.929][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.930][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-20 16:01:45.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-20 16:01:45.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.941][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-20 16:01:45.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-20 16:01:45.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.944][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-20 16:01:45.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-20 16:01:45.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.948][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-20 16:01:45.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-20 16:01:45.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.952][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-20 16:01:45.953][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-20 16:01:45.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.955][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.956][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-20 16:01:45.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-20 16:01:45.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.966][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-20 16:01:45.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-20 16:01:45.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.970][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-20 16:01:45.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-20 16:01:45.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.974][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-20 16:01:45.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-20 16:01:45.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.978][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-12-20 16:01:45.979][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-20 16:01:45.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.981][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.981][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-20 16:01:45.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-20 16:01:45.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.992][ef$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:45.993][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:45.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:45.995][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:45.999][ef$get] Asked field names are: charge.
biodb.TRACE[2025-12-20 16:01:46.000][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-20 16:01:46.001][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.002][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.006][ef$get] Asked field names are: formula.
biodb.TRACE[2025-12-20 16:01:46.007][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-20 16:01:46.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.012][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.016][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-12-20 16:01:46.017][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-20 16:01:46.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.019][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.023][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-20 16:01:46.024][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-20 16:01:46.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.026][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.030][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:46.031][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:46.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.032][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.036][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:46.037][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:46.038][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.039][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.043][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:46.044][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:46.045][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.046][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.050][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-20 16:01:46.051][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-20 16:01:46.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.053][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.056][ef$get] Asked field names are: name.
biodb.TRACE[2025-12-20 16:01:46.057][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-12-20 16:01:46.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.059][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.063][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-12-20 16:01:46.064][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-20 16:01:46.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.066][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.070][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.23-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-7799-content.xml".
biodb.DEBUG[2025-12-20 16:01:46.071][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-12-20 16:01:46.072][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-12-20 16:01:46.074][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-12-20 16:01:46.075][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-20 16:01:46.076][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-20 16:01:46.080][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:46.080][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:46.081][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:46.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-12-20 16:01:46.084][ef$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:46.085][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:46.086][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.087][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:46.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:46.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.092][ef$get] Asked field names are: charge.
biodb.TRACE[2025-12-20 16:01:46.093][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-20 16:01:46.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.095][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.096][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-20 16:01:46.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-20 16:01:46.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.100][ef$get] Asked field names are: formula.
biodb.TRACE[2025-12-20 16:01:46.101][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-20 16:01:46.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.103][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.104][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-20 16:01:46.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-20 16:01:46.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.108][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-12-20 16:01:46.109][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-20 16:01:46.110][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.111][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.112][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-20 16:01:46.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-20 16:01:46.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.116][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-20 16:01:46.117][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-20 16:01:46.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.118][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.120][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-20 16:01:46.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-20 16:01:46.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.123][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:46.124][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:46.125][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.126][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.127][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:46.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:46.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.131][ef$get] Asked field names are: mass.
biodb.TRACE[2025-12-20 16:01:46.132][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:46.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.134][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.135][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-12-20 16:01:46.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:46.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.139][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:46.140][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:46.141][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.142][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.143][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:46.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:46.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.146][ef$get] Asked field names are: name.
biodb.TRACE[2025-12-20 16:01:46.147][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-12-20 16:01:46.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.149][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.150][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-20 16:01:46.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-20 16:01:46.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.154][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-12-20 16:01:46.155][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-20 16:01:46.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.157][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.158][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-12-20 16:01:46.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-20 16:01:46.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.162][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-12-20 16:01:46.163][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-20 16:01:46.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.169][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.170][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-20 16:01:46.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-20 16:01:46.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.174][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:01:46.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:01:46.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.177][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:01:46.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:01:46.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.181][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:46.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:46.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.185][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:01:46.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:01:46.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:46.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:46.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.192][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:46.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:46.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.196][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:46.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:46.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.200][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:46.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:46.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.203][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:46.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:46.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:46.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:46.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-12-20 16:01:46.211][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 7799.
biodb.TRACE[2025-12-20 16:01:46.213][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-20 16:01:46.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-20 16:01:46.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.217][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-20 16:01:46.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-20 16:01:46.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.220][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-20 16:01:46.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-20 16:01:46.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.224][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-20 16:01:46.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-20 16:01:46.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.228][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:46.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:46.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.231][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:46.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:46.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.235][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-12-20 16:01:46.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-12-20 16:01:46.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.239][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-12-20 16:01:46.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-12-20 16:01:46.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.243][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-12-20 16:01:46.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-12-20 16:01:46.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.246][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-12-20 16:01:46.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-12-20 16:01:46.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.251][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:46.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:46.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.259][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:01:46.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:01:46.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:46.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:46.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.269][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:46.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:46.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:46.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:46.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.278][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:46.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:46.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.282][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:46.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:46.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:46.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:46.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.289][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:01:46.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:01:46.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.293][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:01:46.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:01:46.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.297][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:01:46.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:01:46.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:46.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:46.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:46.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:46.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:46.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:46.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.317][ef$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:46.318][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:46.323][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.324][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.325][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:46.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:46.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.335][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-20 16:01:46.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-20 16:01:46.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.339][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-20 16:01:46.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-20 16:01:46.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.342][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-20 16:01:46.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-20 16:01:46.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.346][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-12-20 16:01:46.347][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-20 16:01:46.348][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.349][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.350][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-12-20 16:01:46.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-20 16:01:46.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.360][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-20 16:01:46.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-20 16:01:46.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.364][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-20 16:01:46.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-20 16:01:46.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.368][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-20 16:01:46.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-20 16:01:46.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.372][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-12-20 16:01:46.373][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-20 16:01:46.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.375][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.375][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-12-20 16:01:46.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-20 16:01:46.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.386][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-20 16:01:46.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-20 16:01:46.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.390][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-20 16:01:46.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-20 16:01:46.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.393][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-20 16:01:46.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-20 16:01:46.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.397][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-20 16:01:46.398][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-20 16:01:46.399][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.400][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.401][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-20 16:01:46.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-20 16:01:46.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.411][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:46.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:46.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.415][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:46.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:46.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.419][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:46.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:46.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.423][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:46.424][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:46.425][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.425][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.426][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:46.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:46.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.437][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:46.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:46.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.440][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:46.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:46.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.444][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:46.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:46.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.448][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:46.449][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:46.450][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.451][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.452][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:46.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:46.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.462][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:46.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:46.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.466][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:46.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:46.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.469][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:46.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:46.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.477][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:46.478][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:46.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.480][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.481][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:46.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:46.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.491][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-20 16:01:46.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-20 16:01:46.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.494][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-20 16:01:46.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-20 16:01:46.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.498][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-20 16:01:46.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-20 16:01:46.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.502][ef$get] Asked field names are: charge.
biodb.TRACE[2025-12-20 16:01:46.503][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-20 16:01:46.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.505][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.506][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-12-20 16:01:46.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-20 16:01:46.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.516][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-20 16:01:46.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-20 16:01:46.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.520][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-20 16:01:46.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-20 16:01:46.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.523][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-20 16:01:46.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-20 16:01:46.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.527][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-20 16:01:46.528][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-20 16:01:46.529][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.530][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.531][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-20 16:01:46.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-20 16:01:46.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.541][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-20 16:01:46.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-20 16:01:46.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.545][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-20 16:01:46.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-20 16:01:46.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.549][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-20 16:01:46.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-20 16:01:46.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.553][ef$get] Asked field names are: name.
biodb.TRACE[2025-12-20 16:01:46.554][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-12-20 16:01:46.555][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.556][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.556][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-12-20 16:01:46.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-12-20 16:01:46.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.567][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-20 16:01:46.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-20 16:01:46.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.571][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-20 16:01:46.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-20 16:01:46.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.575][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-20 16:01:46.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-20 16:01:46.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.578][ef$get] Asked field names are: formula.
biodb.TRACE[2025-12-20 16:01:46.579][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-20 16:01:46.580][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.581][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.582][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-12-20 16:01:46.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-20 16:01:46.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.593][ef$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:01:46.594][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:01:46.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.596][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.599][ef$get] Asked field names are: charge.
biodb.TRACE[2025-12-20 16:01:46.600][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-12-20 16:01:46.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.602][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.606][ef$get] Asked field names are: formula.
biodb.TRACE[2025-12-20 16:01:46.607][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-12-20 16:01:46.608][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.609][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.613][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-12-20 16:01:46.614][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-12-20 16:01:46.614][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.615][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.619][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-12-20 16:01:46.620][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-12-20 16:01:46.621][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.626][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.630][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:46.631][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-12-20 16:01:46.632][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.632][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.636][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:46.637][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-12-20 16:01:46.638][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.639][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.643][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:46.644][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:01:46.645][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.646][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.649][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-12-20 16:01:46.650][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-12-20 16:01:46.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.652][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.656][ef$get] Asked field names are: name.
biodb.TRACE[2025-12-20 16:01:46.657][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-12-20 16:01:46.658][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.659][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:01:46.662][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-12-20 16:01:46.664][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-12-20 16:01:46.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:01:46.665][ef$get] fields variable is a list.
biodb.INFO [2025-12-20 16:01:46.672][biodb::testThat]
biodb.INFO [2025-12-20 16:01:46.672][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-12-20 16:01:46.673][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-20 16:01:46.674][biodb::testThat]
biodb.DEBUG[2025-12-20 16:01:46.676][private$loadEntries] Creating entries from ids [3]: "15440, 2528, 7799".
biodb.DEBUG[2025-12-20 16:01:46.679][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-12-20 16:01:46.682][cch$loadContents] Load 3 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2025-12-20 16:01:46.683][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-12-20 16:01:46.684][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-12-20 16:01:46.685][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-12-20 16:01:46.686][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-12-20 16:01:46.692][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-12-20 16:01:46.693][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-20 16:01:46.694][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-20 16:01:46.698][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:01:46.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:01:46.699][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:01:46.700][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".
sched.DEBUG[2025-12-20 16:01:46.702][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
fscache.INFO [2025-12-20 16:01:46.721][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2025-12-20 16:01:46.722][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-20 16:01:46.723][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-20 16:01:46.724][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-12-20 16:01:47.997][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[2025-12-20 16:01:47.998][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-20 16:01:47.999][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[2025-12-20 16:01:48.000][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 [2025-12-20 16:01:49.166][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-12-20 16:01:49.167][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-20 16:01:49.168][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-20 16:01:49.169][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-12-20 16:01:49.644][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[2025-12-20 16:01:49.645][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-20 16:01:49.646][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[2025-12-20 16:01:49.647][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 [2025-12-20 16:01:50.407][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-12-20 16:01:50.409][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-20 16:01:50.410][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-20 16:01:50.412][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-12-20 16:01:51.244][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[2025-12-20 16:01:51.247][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-20 16:01:51.249][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[2025-12-20 16:01:51.252][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 [2025-12-20 16:01:52.047][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-12-20 16:01:52.049][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-20 16:01:52.051][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-20 16:01:52.054][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-12-20 16:01:52.576][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[2025-12-20 16:01:52.578][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-20 16:01:52.581][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[2025-12-20 16:01:52.583][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 [2025-12-20 16:01:53.359][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-12-20 16:01:53.361][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-20 16:01:53.362][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-20 16:01:53.364][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-12-20 16:01:53.840][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[2025-12-20 16:01:53.841][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-20 16:01:53.842][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[2025-12-20 16:01:53.843][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 [2025-12-20 16:01:54.603][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-12-20 16:01:54.604][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-20 16:01:54.606][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-20 16:01:54.607][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-12-20 16:01:55.082][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[2025-12-20 16:01:55.083][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-20 16:01:55.084][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[2025-12-20 16:01:55.105][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 [2025-12-20 16:01:55.865][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-12-20 16:01:55.866][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-20 16:01:55.867][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-20 16:01:55.869][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-12-20 16:01:56.344][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[2025-12-20 16:01:56.346][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-20 16:01:56.349][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[2025-12-20 16:01:56.351][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 [2025-12-20 16:01:57.148][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-12-20 16:01:57.150][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-20 16:01:57.153][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-20 16:01:57.156][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-12-20 16:01:57.635][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[2025-12-20 16:01:57.636][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-20 16:01:57.638][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[2025-12-20 16:01:57.639][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 [2025-12-20 16:01:58.406][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-12-20 16:01:58.409][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-20 16:01:58.412][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-20 16:01:58.415][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-12-20 16:01:58.895][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[2025-12-20 16:01:58.896][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-20 16:01:58.898][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[2025-12-20 16:01:58.899][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 [2025-12-20 16:01:59.661][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
sched.DEBUG[2025-12-20 16:01:59.664][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-20 16:01:59.667][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-20 16:01:59.670][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
sched.TRACE[2025-12-20 16:02:00.149][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[2025-12-20 16:02:00.151][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-20 16:02:00.153][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[2025-12-20 16:02:00.155][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 [2025-12-20 16:02:00.936][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440". Retrying connection to server...
biodb.DEBUG[2025-12-20 16:02:00.941][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-12-20 16:02:00.943][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-20 16:02:00.945][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-20 16:02:00.957][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:02:00.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:02:00.962][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:02:00.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-12-20 16:02:00.998][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
fscache.INFO [2025-12-20 16:02:01.033][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2025-12-20 16:02:01.050][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-20 16:02:01.051][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-20 16:02:01.053][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-12-20 16:02:01.530][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-12-20 16:02:01.533][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-20 16:02:01.535][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-20 16:02:01.538][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-12-20 16:02:02.334][private$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[2025-12-20 16:02:02.337][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-20 16:02:02.339][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-20 16:02:02.343][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-12-20 16:02:02.834][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-12-20 16:02:02.836][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-20 16:02:02.839][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-20 16:02:02.841][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-12-20 16:02:03.637][private$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[2025-12-20 16:02:03.639][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-20 16:02:03.642][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-20 16:02:03.645][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-12-20 16:02:04.123][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-12-20 16:02:04.125][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-20 16:02:04.128][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-20 16:02:04.130][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-12-20 16:02:04.926][private$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[2025-12-20 16:02:04.928][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-20 16:02:04.938][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-20 16:02:04.941][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-12-20 16:02:05.419][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-12-20 16:02:05.421][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-20 16:02:05.423][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-20 16:02:05.425][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-12-20 16:02:06.221][private$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[2025-12-20 16:02:06.224][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-20 16:02:06.227][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-20 16:02:06.230][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-12-20 16:02:06.713][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-12-20 16:02:06.715][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-20 16:02:06.718][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-20 16:02:06.720][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-12-20 16:02:07.517][private$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[2025-12-20 16:02:07.519][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-20 16:02:07.522][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-20 16:02:07.525][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-12-20 16:02:08.002][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-12-20 16:02:08.004][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-20 16:02:08.007][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-20 16:02:08.009][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-12-20 16:02:08.803][private$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[2025-12-20 16:02:08.804][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-20 16:02:08.805][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-20 16:02:08.806][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-12-20 16:02:09.293][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-12-20 16:02:09.296][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-20 16:02:09.299][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-20 16:02:09.301][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-12-20 16:02:10.098][private$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[2025-12-20 16:02:10.101][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-20 16:02:10.104][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-20 16:02:10.108][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-12-20 16:02:10.589][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-12-20 16:02:10.591][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-20 16:02:10.594][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-20 16:02:10.597][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-12-20 16:02:11.392][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
sched.DEBUG[2025-12-20 16:02:11.395][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-20 16:02:11.398][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-20 16:02:11.401][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-12-20 16:02:11.882][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-12-20 16:02:11.885][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-20 16:02:11.888][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-20 16:02:11.890][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-12-20 16:02:12.686][private$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[2025-12-20 16:02:12.689][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-20 16:02:12.692][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-20 16:02:12.695][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
sched.TRACE[2025-12-20 16:02:13.178][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528 does not exist.
sched.TRACE[2025-12-20 16:02:13.180][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-20 16:02:13.183][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-20 16:02:13.186][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
sched.INFO [2025-12-20 16:02:13.982][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528". Retrying connection to server...
biodb.DEBUG[2025-12-20 16:02:13.985][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-12-20 16:02:13.988][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-20 16:02:13.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-20 16:02:14.004][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:02:14.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:02:14.009][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:02:14.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-12-20 16:02:14.015][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
fscache.INFO [2025-12-20 16:02:14.021][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
sched.DEBUG[2025-12-20 16:02:14.023][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-20 16:02:14.025][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-20 16:02:14.028][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-12-20 16:02:14.506][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[2025-12-20 16:02:14.509][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-20 16:02:14.511][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[2025-12-20 16:02:14.514][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 [2025-12-20 16:02:15.309][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-12-20 16:02:15.312][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-20 16:02:15.315][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-20 16:02:15.318][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-12-20 16:02:15.800][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[2025-12-20 16:02:15.802][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-20 16:02:15.805][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[2025-12-20 16:02:15.808][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 [2025-12-20 16:02:16.604][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-12-20 16:02:16.607][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-20 16:02:16.609][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-20 16:02:16.613][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-12-20 16:02:17.092][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[2025-12-20 16:02:17.094][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-20 16:02:17.096][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[2025-12-20 16:02:17.099][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 [2025-12-20 16:02:17.894][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-12-20 16:02:17.897][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-20 16:02:17.899][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-20 16:02:17.903][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-12-20 16:02:18.381][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[2025-12-20 16:02:18.384][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-20 16:02:18.386][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[2025-12-20 16:02:18.389][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 [2025-12-20 16:02:19.185][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-12-20 16:02:19.188][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-20 16:02:19.191][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-20 16:02:19.194][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-12-20 16:02:19.672][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[2025-12-20 16:02:19.675][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-20 16:02:19.678][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[2025-12-20 16:02:19.680][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 [2025-12-20 16:02:20.477][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-12-20 16:02:20.479][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-20 16:02:20.482][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-20 16:02:20.485][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-12-20 16:02:20.965][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[2025-12-20 16:02:20.967][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-20 16:02:20.970][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[2025-12-20 16:02:20.972][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 [2025-12-20 16:02:21.768][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-12-20 16:02:21.771][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-20 16:02:21.773][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-20 16:02:21.777][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-12-20 16:02:22.255][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[2025-12-20 16:02:22.258][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-20 16:02:22.261][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[2025-12-20 16:02:22.263][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 [2025-12-20 16:02:23.059][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-12-20 16:02:23.062][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-20 16:02:23.065][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-20 16:02:23.068][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-12-20 16:02:23.592][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[2025-12-20 16:02:23.595][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-20 16:02:23.597][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[2025-12-20 16:02:23.600][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 [2025-12-20 16:02:24.396][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-12-20 16:02:24.399][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-20 16:02:24.401][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-20 16:02:24.405][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-12-20 16:02:24.887][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[2025-12-20 16:02:24.889][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-20 16:02:24.892][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[2025-12-20 16:02:24.895][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 [2025-12-20 16:02:25.690][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
sched.DEBUG[2025-12-20 16:02:25.693][private$doSendRequestLoop] Request header is: "".
sched.DEBUG[2025-12-20 16:02:25.696][private$doSendRequestLoop] Request body is "".
sched.TRACE[2025-12-20 16:02:25.725][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
sched.TRACE[2025-12-20 16:02:26.207][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[2025-12-20 16:02:26.209][get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-12-20 16:02:26.212][get_url_request_result] URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-12-20 16:02:26.214][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 [2025-12-20 16:02:27.010][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799". Retrying connection to server...
fscache.INFO [2025-12-20 16:02:27.014][cch$saveContents] Save 3 contents to /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
biodb.DEBUG[2025-12-20 16:02:27.017][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-12-20 16:02:27.020][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-12-20 16:02:27.023][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-12-20 16:02:27.027][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-12-20 16:02:27.030][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-20 16:02:27.032][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-20 16:02:27.043][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:02:27.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:02:27.048][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:02:27.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-12-20 16:02:27.053][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:02:27.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:02:27.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:02:27.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:02:27.062][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:02:27.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:02:27.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:02:27.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:02:27.068][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:02:27.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:02:27.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:02:27.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-12-20 16:02:27.074][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-12-20 16:02:27.075][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-20 16:02:27.077][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-20 16:02:27.082][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:02:27.083][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:02:27.084][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:02:27.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-12-20 16:02:27.087][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:02:27.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:02:27.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:02:27.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:02:27.092][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:02:27.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:02:27.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:02:27.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:02:27.096][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:02:27.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:02:27.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:02:27.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-12-20 16:02:27.100][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-12-20 16:02:27.101][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-20 16:02:27.102][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-20 16:02:27.106][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:02:27.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:02:27.108][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:02:27.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-12-20 16:02:27.110][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:02:27.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:02:27.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:02:27.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:02:27.114][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-12-20 16:02:27.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-12-20 16:02:27.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:02:27.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:02:27.118][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:02:27.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:02:27.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:02:27.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:02:27.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:02:27.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:02:27.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:02:27.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:02:27.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:02:27.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:02:27.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:02:27.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:02:27.130][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:02:27.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:02:27.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:02:27.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:02:27.134][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:02:27.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:02:27.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:02:27.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:02:27.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:02:27.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:02:27.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:02:27.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:02:27.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:02:27.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:02:27.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:02:27.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:02:27.146][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:02:27.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:02:27.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:02:27.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:02:27.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:02:27.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:02:27.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:02:27.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:02:27.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:02:27.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:02:27.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:02:27.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:02:27.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:02:27.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:02:27.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:02:27.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:02:27.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:02:27.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:02:27.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:02:27.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:02:27.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:02:27.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:02:27.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:02:27.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:02:27.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:02:27.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:02:27.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:02:27.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:02:27.173][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:02:27.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:02:27.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:02:27.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:02:27.177][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-12-20 16:02:27.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-12-20 16:02:27.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:02:27.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-12-20 16:02:27.181][self$createEntryFromContent] Accession numbers: NA, NA, NA.
biodb.DEBUG[2025-12-20 16:02:27.181][self$createEntryFromContent] Found 3 entry/ies without an accession number. Set it/them to NULL.
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2025-12-20 16:02:27.314][biodb::testThat]
biodb.INFO [2025-12-20 16:02:27.315][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-12-20 16:02:27.316][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-20 16:02:27.317][biodb::testThat]
biodb.TRACE[2025-12-20 16:02:27.320][ef$get] Asked field names are: name.
biodb.TRACE[2025-12-20 16:02:27.321][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-12-20 16:02:27.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:02:27.323][ef$get] fields variable is a list.
biodb.DEBUG[2025-12-20 16:02:27.324][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 [2025-12-20 16:02:27.554][biodb::testThat]
biodb.INFO [2025-12-20 16:02:27.555][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-12-20 16:02:27.556][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-20 16:02:27.557][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2025-12-20 16:02:27.652][biodb::testThat]
biodb.INFO [2025-12-20 16:02:27.653][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-12-20 16:02:27.658][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-20 16:02:27.659][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2025-12-20 16:02:27.755][biodb::testThat]
biodb.INFO [2025-12-20 16:02:27.756][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-12-20 16:02:27.757][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-20 16:02:27.758][biodb::testThat]
biodb.INFO [2025-12-20 16:02:27.766][biodb::testThat]
biodb.INFO [2025-12-20 16:02:27.767][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-12-20 16:02:27.768][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-20 16:02:27.769][biodb::testThat]
biodb.INFO [2025-12-20 16:02:27.775][biodb::testThat]
biodb.INFO [2025-12-20 16:02:27.776][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-12-20 16:02:27.777][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-20 16:02:27.778][biodb::testThat]
biodb.DEBUG[2025-12-20 16:02:27.782][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-12-20 16:02:28.476][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-12-20 16:02:28.974][biodb::testThat]
biodb.INFO [2025-12-20 16:02:28.976][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-12-20 16:02:28.978][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-20 16:02:28.981][biodb::testThat]
biodb.TRACE[2025-12-20 16:02:29.013][ef$get] Asked field names are: name.
biodb.TRACE[2025-12-20 16:02:29.014][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-12-20 16:02:29.016][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:02:29.017][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:02:29.018][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:02:29.019][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:02:29.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:02:29.022][ef$get] fields variable is a list.
biodb.INFO [2025-12-20 16:02:29.024][biodb::testThat]
biodb.INFO [2025-12-20 16:02:29.025][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-12-20 16:02:29.026][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-20 16:02:29.027][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2025-12-20 16:02:29.151][biodb::testThat]
biodb.INFO [2025-12-20 16:02:29.152][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-12-20 16:02:29.153][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-20 16:02:29.154][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2025-12-20 16:02:29.195][biodb::testThat]
biodb.INFO [2025-12-20 16:02:29.196][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-12-20 16:02:29.197][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-20 16:02:29.198][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2025-12-20 16:02:29.244][biodb::testThat]
biodb.INFO [2025-12-20 16:02:29.245][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-12-20 16:02:29.246][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-20 16:02:29.247][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.TRACE[2025-12-20 16:02:29.288][ef$get] Asked field names are: name.
biodb.TRACE[2025-12-20 16:02:29.289][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-12-20 16:02:29.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:02:29.291][ef$get] fields variable is a list.
biodb.TRACE[2025-12-20 16:02:29.292][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:02:29.293][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-12-20 16:02:29.294][ef$get] 1 fields were returned.
biodb.TRACE[2025-12-20 16:02:29.295][ef$get] fields variable is a list.
biodb.INFO [2025-12-20 16:02:29.297][biodb::testThat]
biodb.INFO [2025-12-20 16:02:29.298][biodb::testThat] Running test function  test.annotateMzValues_real_values  (" annotateMzValues() works correctly with real values. ").
biodb.INFO [2025-12-20 16:02:29.299][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-20 16:02:29.300][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2025-12-20 16:02:29.345][biodb::testThat]
biodb.INFO [2025-12-20 16:02:29.346][biodb::testThat] Running test function  test_annotateMzValues_additional_fields  (" Additional fields are accepted in annotateMzValues() ").
biodb.INFO [2025-12-20 16:02:29.347][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-12-20 16:02:29.348][biodb::testThat]
Saving _problems/test_long_100_generic-18.R
biodb.INFO [2025-12-20 16:02:29.389][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-12-20 16:02:29.390][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-12-20 16:02:29.391][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-12-20 16:02:29.392][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-12-20 16:02:29.393][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-12-20 16:02:29.394][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-12-20 16:02:29.395][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-12-20 16:02:29.396][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-12-20 16:02:29.397][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ 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)