Back to Long Tests report for BioC 3.22

This page was generated on 2025-10-18 23:55 -0400 (Sat, 18 Oct 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4887
lconwaymacOS 12.7.6 Montereyx86_644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4677
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 8/31HostnameOS / ArchCHECK
biodbNci 1.13.1  (landing page)
Pierrick Roger
Snapshot Date: 2025-10-18 09:55 -0400 (Sat, 18 Oct 2025)
git_url: https://git.bioconductor.org/packages/biodbNci
git_branch: devel
git_last_commit: 658b5cb
git_last_commit_date: 2025-07-24 10:46:27 -0400 (Thu, 24 Jul 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  ERROR  
lconwaymacOS 12.7.6 Monterey / x86_64  ERROR  

CHECK results for biodbNci on lconway

To the developers/maintainers of the biodbNci 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: biodbNci
Version: 1.13.1
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbNci_1.13.1.tar.gz
StartedAt: 2025-10-18 16:01:15 -0400 (Sat, 18 Oct 2025)
EndedAt: 2025-10-18 16:02:17 -0400 (Sat, 18 Oct 2025)
EllapsedTime: 61.6 seconds
RetCode: 1
Status:   ERROR  
CheckDir: biodbNci.Rcheck
Warnings: NA

Tests output

biodbNci.Rcheck/tests/testthat.Rout.fail


R version 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin20

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbNci)
Warning message:
In fun(libname, pkgname) :
  Package 'biodbNci' is deprecated and will be removed from Bioconductor
  version 3.23
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbNci")
biodb.INFO [2025-10-18 16:02:13.575][biodb::testContext]
biodb.INFO [2025-10-18 16:02:13.578][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-18 16:02:13.579][biodb::testContext] Test context - Generic long tests
biodb.INFO [2025-10-18 16:02:13.580][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-18 16:02:13.581][biodb::testContext]
biodb.INFO [2025-10-18 16:02:13.586][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-18 16:02:13.588][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-10-18 16:02:13.594][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-18 16:02:13.595][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-18 16:02:13.596][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-18 16:02:13.597][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:13.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:13.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-18 16:02:13.600][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-18 16:02:13.614][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-18 16:02:13.615][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:13.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:13.616][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:13.617][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-18 16:02:13.618][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-18 16:02:13.627][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:13.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:13.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-18 16:02:13.630][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-18 16:02:13.631][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-18 16:02:13.632][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-18 16:02:13.632][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:13.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:13.634][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:13.635][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-18 16:02:13.635][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-18 16:02:13.636][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-18 16:02:13.637][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:13.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:13.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-18 16:02:13.639][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-18 16:02:13.640][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-18 16:02:13.640][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:13.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:13.642][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:13.643][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-18 16:02:13.643][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-18 16:02:13.644][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-18 16:02:13.645][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:13.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:13.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-18 16:02:13.647][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-18 16:02:13.648][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-18 16:02:13.649][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:13.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:13.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-18 16:02:13.651][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-18 16:02:13.652][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-18 16:02:13.653][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-18 16:02:13.653][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:13.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:13.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-18 16:02:13.656][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-18 16:02:13.656][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-18 16:02:13.657][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-18 16:02:13.658][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-18 16:02:13.659][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-18 16:02:13.660][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-18 16:02:13.660][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:13.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:13.662][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:13.662][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-18 16:02:13.663][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-18 16:02:13.664][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:13.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:13.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-18 16:02:13.666][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-18 16:02:13.667][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-18 16:02:13.668][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:13.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:13.670][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-18 16:02:13.670][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-18 16:02:13.671][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-18 16:02:13.672][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:13.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:13.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-18 16:02:13.674][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-18 16:02:13.676][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-18 16:02:13.677][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-18 16:02:13.678][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:13.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:13.681][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:13.682][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-18 16:02:13.683][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-18 16:02:13.708][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-18 16:02:13.709][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:13.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:13.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-18 16:02:13.712][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-18 16:02:13.713][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-18 16:02:13.714][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-18 16:02:13.715][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:13.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:13.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-18 16:02:13.719][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-18 16:02:13.745][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-18 16:02:13.757][self$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[2025-10-18 16:02:13.758][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:13.759][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-18 16:02:13.760][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:13.761][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-18 16:02:13.761][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-18 16:02:13.762][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-18 16:02:13.763][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-18 16:02:13.763][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-18 16:02:13.764][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:13.765][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-18 16:02:13.766][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-18 16:02:13.767][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-18 16:02:13.767][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:13.768][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-18 16:02:13.768][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-18 16:02:13.768][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-18 16:02:13.768][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-18 16:02:13.768][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-18 16:02:13.769][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-18 16:02:13.770][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-18 16:02:13.770][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-18 16:02:13.771][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-18 16:02:13.772][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-18 16:02:13.773][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-18 16:02:13.774][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-18 16:02:13.774][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-18 16:02:13.775][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-18 16:02:13.776][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-18 16:02:13.777][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-18 16:02:13.777][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-18 16:02:13.778][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-18 16:02:13.780][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-18 16:02:13.780][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-18 16:02:13.781][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:13.782][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-18 16:02:13.787][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:13.788][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-18 16:02:13.789][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-18 16:02:13.790][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-18 16:02:13.790][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-18 16:02:13.791][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-18 16:02:13.792][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:13.793][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-18 16:02:13.794][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-18 16:02:13.795][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-18 16:02:13.795][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:13.796][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-18 16:02:13.796][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-18 16:02:13.796][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-18 16:02:13.796][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-18 16:02:13.796][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-18 16:02:13.797][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-18 16:02:13.798][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-18 16:02:13.799][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-18 16:02:13.799][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-18 16:02:13.800][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-18 16:02:13.801][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-18 16:02:13.802][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-18 16:02:13.803][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-18 16:02:13.803][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-18 16:02:13.804][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-18 16:02:13.805][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-18 16:02:13.806][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-18 16:02:13.806][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-18 16:02:13.808][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:13.809][self$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[2025-10-18 16:02:13.809][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:13.810][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-18 16:02:13.811][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:13.811][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-18 16:02:13.812][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-18 16:02:13.813][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-18 16:02:13.814][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-18 16:02:13.814][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-18 16:02:13.815][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-18 16:02:13.816][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-18 16:02:13.817][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-18 16:02:13.817][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-18 16:02:13.818][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:13.819][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-18 16:02:13.820][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-18 16:02:13.820][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-18 16:02:13.821][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-18 16:02:13.822][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-18 16:02:13.822][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-18 16:02:13.823][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-18 16:02:13.824][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-18 16:02:13.824][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-18 16:02:13.825][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-18 16:02:13.826][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-18 16:02:13.827][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-18 16:02:13.827][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-18 16:02:13.828][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-18 16:02:13.829][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:13.830][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-18 16:02:13.831][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:13.832][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-18 16:02:13.832][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:13.833][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-18 16:02:13.834][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-18 16:02:13.835][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-18 16:02:13.835][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-18 16:02:13.836][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-18 16:02:13.837][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-18 16:02:13.838][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-18 16:02:13.838][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-18 16:02:13.839][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-18 16:02:13.840][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:13.841][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-18 16:02:13.841][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-18 16:02:13.842][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-18 16:02:13.843][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-18 16:02:13.844][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-18 16:02:13.844][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-18 16:02:13.845][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-18 16:02:13.846][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-18 16:02:13.846][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-18 16:02:13.847][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-18 16:02:13.848][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-18 16:02:13.849][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-18 16:02:13.849][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-18 16:02:13.852][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-18 16:02:13.853][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:13.854][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[2025-10-18 16:02:13.854][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:13.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:13.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:13.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:13.857][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:13.858][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:13.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:13.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:13.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:13.860][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:13.861][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:13.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:13.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:13.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:13.864][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[2025-10-18 16:02:13.864][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:13.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:13.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:13.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:13.867][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:13.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:13.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:13.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:13.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:13.870][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:13.871][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:13.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:13.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:13.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:13.874][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:13.874][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:13.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:13.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:13.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:13.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-18 16:02:13.878][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:13.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:13.879][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:13.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:13.881][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:13.881][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:13.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:13.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:13.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:13.884][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:13.885][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:13.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:13.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:13.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:13.888][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[2025-10-18 16:02:13.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:13.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:13.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:13.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:13.891][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:13.892][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:13.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:13.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:13.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:13.895][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:13.895][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:13.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:13.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:13.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:13.898][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:13.899][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:13.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:13.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:13.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:13.902][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:13.903][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:13.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:13.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:13.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:13.906][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:13.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:13.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:13.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:13.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:13.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-18 16:02:13.910][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-18 16:02:13.918][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-18 16:02:13.919][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-18 16:02:13.920][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-18 16:02:13.921][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-18 16:02:13.922][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-18 16:02:13.923][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-18 16:02:13.925][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-18 16:02:13.926][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-18 16:02:13.927][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-18 16:02:13.928][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-18 16:02:13.929][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-18 16:02:13.930][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-18 16:02:13.931][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-18 16:02:13.932][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-18 16:02:13.933][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-18 16:02:13.934][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-18 16:02:13.935][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-18 16:02:13.936][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-18 16:02:13.937][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-18 16:02:13.938][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-18 16:02:13.939][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-18 16:02:13.941][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-18 16:02:13.942][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-18 16:02:13.943][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-18 16:02:13.944][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-18 16:02:13.945][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-18 16:02:13.946][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-18 16:02:13.947][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-18 16:02:13.948][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-18 16:02:13.949][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-18 16:02:13.950][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-18 16:02:13.951][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-18 16:02:13.952][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-18 16:02:13.953][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-18 16:02:13.954][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-18 16:02:13.955][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-18 16:02:13.956][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-18 16:02:13.957][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-18 16:02:13.958][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-18 16:02:13.959][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-18 16:02:13.960][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-18 16:02:13.961][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-18 16:02:13.962][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-18 16:02:13.963][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-18 16:02:13.964][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-18 16:02:13.965][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-18 16:02:13.966][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-18 16:02:13.967][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-18 16:02:13.968][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-18 16:02:13.969][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-18 16:02:13.970][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-18 16:02:13.971][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-18 16:02:13.972][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-18 16:02:13.973][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-18 16:02:13.974][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-18 16:02:13.975][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-18 16:02:13.976][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-18 16:02:13.977][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-18 16:02:13.978][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-18 16:02:13.979][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-18 16:02:13.980][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-18 16:02:13.981][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-18 16:02:13.982][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-18 16:02:13.983][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-18 16:02:13.985][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-18 16:02:13.986][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-18 16:02:13.987][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-18 16:02:13.988][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-18 16:02:13.989][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-18 16:02:13.990][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-18 16:02:13.991][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-18 16:02:13.992][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-18 16:02:13.993][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-18 16:02:13.994][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-18 16:02:13.995][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-18 16:02:13.996][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-18 16:02:13.997][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-18 16:02:13.998][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-18 16:02:13.999][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-18 16:02:14.000][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-18 16:02:14.002][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-18 16:02:14.003][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-18 16:02:14.007][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-18 16:02:14.009][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-18 16:02:14.011][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-18 16:02:14.012][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:14.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:14.013][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:14.014][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:14.018][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:14.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-18 16:02:14.019][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-18 16:02:14.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:14.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:14.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:14.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-18 16:02:14.023][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:14.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-18 16:02:14.024][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-18 16:02:14.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:14.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:14.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:14.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-18 16:02:14.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:14.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-18 16:02:14.029][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-18 16:02:14.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:14.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:14.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:14.031][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:14.032][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:14.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-18 16:02:14.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-18 16:02:14.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:14.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:14.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:14.041][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:14.041][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:14.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-18 16:02:14.043][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-18 16:02:14.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:14.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:14.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:14.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-18 16:02:14.046][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:14.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-18 16:02:14.047][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-18 16:02:14.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:14.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:14.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:14.050][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.DEBUG[2025-10-18 16:02:14.050][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:14.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-18 16:02:14.052][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-18 16:02:14.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:14.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:14.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:14.055][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:14.055][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:14.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-18 16:02:14.057][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-18 16:02:14.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:14.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:14.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:14.060][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:14.060][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:14.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-18 16:02:14.062][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-18 16:02:14.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:14.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:14.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:14.065][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:14.065][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:14.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-18 16:02:14.067][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-18 16:02:14.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:14.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:14.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:14.070][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:14.070][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:14.071][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-18 16:02:14.072][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-18 16:02:14.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:14.074][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:14.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:14.075][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:14.076][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:14.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-18 16:02:14.077][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-18 16:02:14.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:14.079][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:14.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:14.080][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:14.081][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:14.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-18 16:02:14.082][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-18 16:02:14.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:14.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:14.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:14.085][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.DEBUG[2025-10-18 16:02:14.086][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:14.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-18 16:02:14.087][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-18 16:02:14.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:14.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:14.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:14.090][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:14.091][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:14.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-18 16:02:14.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-18 16:02:14.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:14.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:14.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:14.095][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:14.096][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:14.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-18 16:02:14.098][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-18 16:02:14.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:14.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:14.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:14.100][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:14.102][biodb$loadDefinitions] Load definitions from file "/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbNci.Rcheck/biodbNci/definitions.yml".
biodb.DEBUG[2025-10-18 16:02:14.110][self$getDbsInfo()$define] Define connector nci.cactus.
biodb.DEBUG[2025-10-18 16:02:14.111][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-18 16:02:14.112][self$setPropertyValue] Setting property "description" to "National Cancer Institute (USA) CACTUS Database.".
biodb.DEBUG[2025-10-18 16:02:14.113][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:14.114][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-18 16:02:14.115][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-10-18 16:02:14.115][self$setPropertyValue] Setting property "dwnld.ext" to "gz".
biodb.DEBUG[2025-10-18 16:02:14.116][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:14.117][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-18 16:02:14.118][self$setPropertyValue] Setting property "entry.content.type" to "sdf".
biodb.DEBUG[2025-10-18 16:02:14.119][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-18 16:02:14.119][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:14.120][self$setPropertyValue] Setting property "name" to "NCI CACTUS".
biodb.DEBUG[2025-10-18 16:02:14.121][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-18 16:02:14.122][self$setPropertyValue] Setting property "parsing.expr" to "NSC".
biodb.DEBUG[2025-10-18 16:02:14.122][self$setPropertyValue] Setting property "parsing.expr" to "DTP names".
biodb.DEBUG[2025-10-18 16:02:14.122][self$setPropertyValue] Setting property "parsing.expr" to "Standard InChI".
biodb.DEBUG[2025-10-18 16:02:14.122][self$setPropertyValue] Setting property "parsing.expr" to "c("Standard InChIKey", "^InChIKey=(.*)$")".
biodb.DEBUG[2025-10-18 16:02:14.122][self$setPropertyValue] Setting property "parsing.expr" to "Formula".
biodb.DEBUG[2025-10-18 16:02:14.122][self$setPropertyValue] Setting property "parsing.expr" to "Molecular Weight".
biodb.DEBUG[2025-10-18 16:02:14.122][self$setPropertyValue] Setting property "parsing.expr" to "CAS".
biodb.DEBUG[2025-10-18 16:02:14.123][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-18 16:02:14.124][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-18 16:02:14.124][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-18 16:02:14.125][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-18 16:02:14.126][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-18 16:02:14.127][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-18 16:02:14.127][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-18 16:02:14.128][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-18 16:02:14.129][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-18 16:02:14.130][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/".
biodb.DEBUG[2025-10-18 16:02:14.130][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/".
biodb.DEBUG[2025-10-18 16:02:14.130][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/download/nci/".
biodb.DEBUG[2025-10-18 16:02:14.130][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/download/nci/NCI-Open_2012-05-01.sdf.gz".
biodb.DEBUG[2025-10-18 16:02:14.131][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-18 16:02:14.131][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-18 16:02:14.132][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:14.133][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-18 16:02:14.137][self$getEntryFields()$define] Define field nci.cactus.id.
biodb.DEBUG[2025-10-18 16:02:14.155][super$initialize] Initialize connector nci.cactus.
biodb.DEBUG[2025-10-18 16:02:14.167][biodb$getFactory()$createConn] Creating new connector nci.cactus for database class nci.cactus .
biodb.INFO [2025-10-18 16:02:14.181][biodb::testThat]
biodb.INFO [2025-10-18 16:02:14.182][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-10-18 16:02:14.183][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-18 16:02:14.184][biodb::testThat]
biodb.TRACE[2025-10-18 16:02:14.187][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbNci.Rcheck/biodbNci/testref/entry-nci.cactus-749674-content.sdf".
biodb.DEBUG[2025-10-18 16:02:14.188][biodb$getFactory()$createEntryFromCo ...] Creating NCI CACTUS entries from 1 content(s).
biodb.DEBUG[2025-10-18 16:02:14.190][biodb$getFactory()$createEntryFromCo ...] Parsing 1 NCI CACTUS entries.
biodb.DEBUG[2025-10-18 16:02:14.196][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-18 16:02:14.196][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-18 16:02:14.197][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-18 16:02:14.208][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:14.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:14.209][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:14.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-18 16:02:14.222][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.239][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-18 16:02:14.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-18 16:02:14.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.262][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-18 16:02:14.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-18 16:02:14.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.266][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-18 16:02:14.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-18 16:02:14.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.269][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-18 16:02:14.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-18 16:02:14.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.272][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-18 16:02:14.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-18 16:02:14.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.275][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-18 16:02:14.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-18 16:02:14.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.279][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-18 16:02:14.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-18 16:02:14.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.282][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-18 16:02:14.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-18 16:02:14.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.286][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-10-18 16:02:14.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-10-18 16:02:14.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.288][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-10-18 16:02:14.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-10-18 16:02:14.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.301][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-10-18 16:02:14.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-10-18 16:02:14.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.340][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.344][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-18 16:02:14.350][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 749674.
biodb.TRACE[2025-10-18 16:02:14.352][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-18 16:02:14.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-18 16:02:14.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.355][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-18 16:02:14.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-18 16:02:14.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.359][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-18 16:02:14.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-18 16:02:14.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.362][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-18 16:02:14.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-18 16:02:14.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.366][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.381][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-10-18 16:02:14.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-10-18 16:02:14.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.431][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.434][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.439][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.442][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.445][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.449][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-10-18 16:02:14.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-10-18 16:02:14.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.452][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-10-18 16:02:14.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-10-18 16:02:14.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.455][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-10-18 16:02:14.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-10-18 16:02:14.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.465][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.468][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.475][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.476][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.477][ef$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.488][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-18 16:02:14.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-18 16:02:14.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.492][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-18 16:02:14.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-18 16:02:14.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.496][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-18 16:02:14.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-18 16:02:14.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.499][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-18 16:02:14.501][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-18 16:02:14.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.503][ef$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.505][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-18 16:02:14.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-18 16:02:14.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-18 16:02:14.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-18 16:02:14.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-18 16:02:14.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-18 16:02:14.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.530][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-18 16:02:14.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-18 16:02:14.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.534][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-18 16:02:14.535][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-18 16:02:14.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.536][ef$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.537][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-18 16:02:14.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-18 16:02:14.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.548][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-18 16:02:14.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-18 16:02:14.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.556][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-18 16:02:14.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-18 16:02:14.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.559][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-18 16:02:14.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-18 16:02:14.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.563][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-18 16:02:14.564][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-18 16:02:14.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.565][ef$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.566][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-18 16:02:14.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-18 16:02:14.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.577][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-18 16:02:14.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-18 16:02:14.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.580][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-18 16:02:14.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-18 16:02:14.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.584][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-18 16:02:14.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-18 16:02:14.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.587][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-18 16:02:14.588][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-18 16:02:14.588][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.589][ef$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.590][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-18 16:02:14.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-18 16:02:14.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.600][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.601][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.602][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.603][ef$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.607][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-18 16:02:14.608][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-18 16:02:14.609][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.610][ef$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.614][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-18 16:02:14.615][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-18 16:02:14.616][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.617][ef$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.621][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-18 16:02:14.622][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-18 16:02:14.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.624][ef$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.628][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-18 16:02:14.629][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-18 16:02:14.630][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.630][ef$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.643][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbNci.Rcheck/biodbNci/testref/entry-nci.cactus-750690-content.sdf".
biodb.DEBUG[2025-10-18 16:02:14.672][biodb$getFactory()$createEntryFromCo ...] Creating NCI CACTUS entries from 1 content(s).
biodb.DEBUG[2025-10-18 16:02:14.674][biodb$getFactory()$createEntryFromCo ...] Parsing 1 NCI CACTUS entries.
biodb.DEBUG[2025-10-18 16:02:14.675][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-18 16:02:14.676][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-18 16:02:14.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-18 16:02:14.681][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:14.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:14.683][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:14.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-18 16:02:14.691][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.710][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-10-18 16:02:14.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-10-18 16:02:14.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.714][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-10-18 16:02:14.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-10-18 16:02:14.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.717][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-18 16:02:14.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-18 16:02:14.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.720][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-18 16:02:14.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-18 16:02:14.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.724][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-18 16:02:14.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-18 16:02:14.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.727][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-18 16:02:14.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-18 16:02:14.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.730][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-18 16:02:14.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-18 16:02:14.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.733][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-18 16:02:14.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-18 16:02:14.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.736][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-18 16:02:14.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-18 16:02:14.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.739][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-18 16:02:14.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-18 16:02:14.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.742][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-18 16:02:14.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-18 16:02:14.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.746][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-18 16:02:14.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-18 16:02:14.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.749][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-18 16:02:14.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-18 16:02:14.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.757][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-18 16:02:14.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-18 16:02:14.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.761][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-18 16:02:14.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-18 16:02:14.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.764][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-18 16:02:14.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-18 16:02:14.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.767][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-18 16:02:14.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-18 16:02:14.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.771][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-10-18 16:02:14.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-10-18 16:02:14.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.774][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-10-18 16:02:14.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-10-18 16:02:14.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.781][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-10-18 16:02:14.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-10-18 16:02:14.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.784][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.797][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.801][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-18 16:02:14.804][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 750690.
biodb.TRACE[2025-10-18 16:02:14.820][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-18 16:02:14.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-18 16:02:14.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.824][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-18 16:02:14.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-18 16:02:14.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.827][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-18 16:02:14.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-18 16:02:14.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.830][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-18 16:02:14.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-18 16:02:14.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.841][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-10-18 16:02:14.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-10-18 16:02:14.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.848][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.858][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.862][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.866][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.869][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.872][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-10-18 16:02:14.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-10-18 16:02:14.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.875][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-10-18 16:02:14.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-10-18 16:02:14.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.879][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-10-18 16:02:14.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-10-18 16:02:14.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.895][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.898][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.902][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.905][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.906][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.907][ef$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.908][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:14.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:14.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.919][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-10-18 16:02:14.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-10-18 16:02:14.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.922][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-10-18 16:02:14.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-10-18 16:02:14.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.925][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-10-18 16:02:14.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-10-18 16:02:14.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.928][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-10-18 16:02:14.929][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-10-18 16:02:14.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.930][ef$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.931][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-10-18 16:02:14.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-10-18 16:02:14.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.941][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-18 16:02:14.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-18 16:02:14.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.944][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-18 16:02:14.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-18 16:02:14.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.947][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-18 16:02:14.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-18 16:02:14.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.951][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-18 16:02:14.951][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-18 16:02:14.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.953][ef$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.954][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-18 16:02:14.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-18 16:02:14.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.967][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-18 16:02:14.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-18 16:02:14.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.971][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-18 16:02:14.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-18 16:02:14.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.974][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-18 16:02:14.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-18 16:02:14.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.977][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-18 16:02:14.978][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-18 16:02:14.979][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.979][ef$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.980][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-18 16:02:14.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-18 16:02:14.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.990][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-18 16:02:14.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-18 16:02:14.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.993][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-18 16:02:14.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-18 16:02:14.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.996][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-18 16:02:14.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-18 16:02:14.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:14.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:14.999][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-18 16:02:15.000][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-18 16:02:15.001][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:15.002][ef$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:15.003][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-18 16:02:15.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-18 16:02:15.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:15.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:15.013][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-18 16:02:15.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-18 16:02:15.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:15.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:15.016][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-18 16:02:15.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-18 16:02:15.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:15.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:15.019][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-18 16:02:15.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-18 16:02:15.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:15.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:15.022][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-18 16:02:15.023][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-18 16:02:15.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:15.025][ef$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:15.025][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-18 16:02:15.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-18 16:02:15.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:15.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:15.035][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-18 16:02:15.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-18 16:02:15.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:15.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:15.038][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-18 16:02:15.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-18 16:02:15.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:15.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:15.041][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-18 16:02:15.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-18 16:02:15.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:15.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:15.044][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-18 16:02:15.045][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-18 16:02:15.046][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:15.046][ef$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:15.047][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-18 16:02:15.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-18 16:02:15.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:15.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:15.057][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-18 16:02:15.058][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-18 16:02:15.059][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:15.060][ef$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:15.068][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-10-18 16:02:15.069][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-10-18 16:02:15.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:15.070][ef$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:15.075][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-18 16:02:15.076][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-18 16:02:15.076][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:15.077][ef$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:15.082][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-18 16:02:15.083][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-18 16:02:15.083][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:15.084][ef$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:15.088][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-18 16:02:15.089][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-18 16:02:15.090][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:15.091][ef$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:15.095][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-18 16:02:15.096][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-18 16:02:15.097][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:15.098][ef$get] fields variable is a list.
biodb.TRACE[2025-10-18 16:02:15.102][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-18 16:02:15.103][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-18 16:02:15.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-18 16:02:15.105][ef$get] fields variable is a list.
biodb.INFO [2025-10-18 16:02:15.112][biodb::testThat]
biodb.INFO [2025-10-18 16:02:15.113][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-10-18 16:02:15.114][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-18 16:02:15.115][biodb::testThat]
biodb.DEBUG[2025-10-18 16:02:15.116][private$loadEntries] Creating entries from ids [2]: "749674, 750690".
biodb.DEBUG[2025-10-18 16:02:15.120][conn$getEntryContent] Get NCI CACTUS entry content(s) for 2 id(s)...
biodb.DEBUG[2025-10-18 16:02:15.122][self$isDownloaded] Database nci.cactus has already been downloaded.
biodb.DEBUG[2025-10-18 16:02:15.145][self$isDownloaded] Database nci.cactus has already been downloaded.
biodb.INFO [2025-10-18 16:02:15.147][self$download] Extract whole database of nci.cactus.
biodb.INFO [2025-10-18 16:02:15.147][private$doExtractDownload] Extracting content of downloaded biodbNci, a library for connecting to the National Cancer Institute (USA) CACTUS Database....
biodb.INFO [2025-10-18 16:02:15.186][biodb::testThat]
biodb.INFO [2025-10-18 16:02:15.187][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-10-18 16:02:15.188][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-18 16:02:15.189][biodb::testThat]
biodb.INFO [2025-10-18 16:02:15.194][biodb::testThat]
biodb.INFO [2025-10-18 16:02:15.196][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-10-18 16:02:15.196][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-18 16:02:15.197][biodb::testThat]
biodb.WARN [2025-10-18 16:02:15.216][self$searchForEntries] This database is not searchable by field "name".
biodb.WARN [2025-10-18 16:02:15.234][self$searchForEntries] This database is not searchable by field "name".
biodb.INFO [2025-10-18 16:02:15.245][biodb::testThat]
biodb.INFO [2025-10-18 16:02:15.246][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-10-18 16:02:15.247][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-18 16:02:15.248][biodb::testThat]
biodb.DEBUG[2025-10-18 16:02:15.265][private$loadEntries] Creating entries from ids [1]: "749674".
biodb.DEBUG[2025-10-18 16:02:15.316][conn$getEntryContent] Get NCI CACTUS entry content(s) for 1 id(s)...
biodb.DEBUG[2025-10-18 16:02:15.318][self$isDownloaded] Database nci.cactus has already been downloaded.
biodb.DEBUG[2025-10-18 16:02:15.320][self$isDownloaded] Database nci.cactus has already been downloaded.
biodb.INFO [2025-10-18 16:02:15.322][self$download] Extract whole database of nci.cactus.
biodb.INFO [2025-10-18 16:02:15.335][private$doExtractDownload] Extracting content of downloaded biodbNci, a library for connecting to the National Cancer Institute (USA) CACTUS Database....
biodb.INFO [2025-10-18 16:02:15.358][biodb::testThat]
biodb.INFO [2025-10-18 16:02:15.359][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-10-18 16:02:15.361][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-18 16:02:15.362][biodb::testThat]
biodb.INFO [2025-10-18 16:02:15.370][biodb::testThat]
biodb.INFO [2025-10-18 16:02:15.371][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-10-18 16:02:15.372][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-18 16:02:15.373][biodb::testThat]
biodb.INFO [2025-10-18 16:02:15.380][biodb::testThat]
biodb.INFO [2025-10-18 16:02:15.380][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-10-18 16:02:15.381][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-18 16:02:15.382][biodb::testThat]
biodb.INFO [2025-10-18 16:02:15.388][biodb::testThat]
biodb.INFO [2025-10-18 16:02:15.393][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-10-18 16:02:15.394][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-18 16:02:15.395][biodb::testThat]
biodb.INFO [2025-10-18 16:02:15.400][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-18 16:02:15.401][self$deleteConn] Connector "nci.cactus" deleted.
biodb.DEBUG[2025-10-18 16:02:15.402][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-18 16:02:15.402][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-18 16:02:15.403][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-18 16:02:15.404][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:15.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:15.405][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-18 16:02:15.414][biodb::testContext]
biodb.INFO [2025-10-18 16:02:15.415][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-18 16:02:15.415][biodb::testContext] Test context - Example long tests
biodb.INFO [2025-10-18 16:02:15.416][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-18 16:02:15.417][biodb::testContext]
biodb.INFO [2025-10-18 16:02:15.419][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-18 16:02:15.420][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-10-18 16:02:15.423][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-18 16:02:15.424][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-18 16:02:15.425][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-18 16:02:15.425][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.427][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:15.428][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-18 16:02:15.429][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-18 16:02:15.429][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-18 16:02:15.431][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-18 16:02:15.432][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-18 16:02:15.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.434][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:15.435][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-18 16:02:15.436][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-18 16:02:15.437][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-18 16:02:15.438][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-18 16:02:15.440][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-18 16:02:15.441][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-18 16:02:15.441][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-18 16:02:15.442][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.443][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-18 16:02:15.444][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-18 16:02:15.445][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-18 16:02:15.446][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-18 16:02:15.448][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-18 16:02:15.448][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-18 16:02:15.449][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-18 16:02:15.450][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.451][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:15.452][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-18 16:02:15.453][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-18 16:02:15.454][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-18 16:02:15.456][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-18 16:02:15.457][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-18 16:02:15.457][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-18 16:02:15.458][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.459][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:15.460][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-18 16:02:15.461][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-18 16:02:15.462][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-18 16:02:15.463][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-18 16:02:15.464][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-18 16:02:15.464][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-18 16:02:15.465][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.466][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-18 16:02:15.467][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-18 16:02:15.468][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-18 16:02:15.469][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-18 16:02:15.471][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-18 16:02:15.472][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-18 16:02:15.472][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-18 16:02:15.474][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-18 16:02:15.475][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-18 16:02:15.476][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.477][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:15.478][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-18 16:02:15.479][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-18 16:02:15.479][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-18 16:02:15.480][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-18 16:02:15.482][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-18 16:02:15.483][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-18 16:02:15.499][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-18 16:02:15.500][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.506][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:15.506][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-18 16:02:15.507][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-18 16:02:15.508][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-18 16:02:15.509][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-18 16:02:15.511][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-18 16:02:15.512][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-18 16:02:15.513][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-18 16:02:15.514][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:15.515][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-18 16:02:15.515][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:15.516][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-18 16:02:15.517][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-18 16:02:15.518][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-18 16:02:15.518][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-18 16:02:15.519][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-18 16:02:15.520][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:15.521][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-18 16:02:15.522][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-18 16:02:15.523][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-18 16:02:15.523][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:15.524][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-18 16:02:15.524][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-18 16:02:15.524][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-18 16:02:15.524][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-18 16:02:15.524][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-18 16:02:15.525][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-18 16:02:15.526][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-18 16:02:15.527][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-18 16:02:15.527][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-18 16:02:15.528][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-18 16:02:15.529][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-18 16:02:15.530][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-18 16:02:15.530][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-18 16:02:15.531][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-18 16:02:15.532][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-18 16:02:15.533][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-18 16:02:15.534][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-18 16:02:15.534][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-18 16:02:15.536][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-18 16:02:15.537][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-18 16:02:15.537][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:15.538][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-18 16:02:15.539][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:15.540][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-18 16:02:15.541][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-18 16:02:15.542][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-18 16:02:15.542][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-18 16:02:15.543][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-18 16:02:15.544][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:15.545][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-18 16:02:15.546][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-18 16:02:15.547][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-18 16:02:15.547][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:15.548][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-18 16:02:15.548][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-18 16:02:15.548][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-18 16:02:15.548][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-18 16:02:15.548][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-18 16:02:15.549][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-18 16:02:15.550][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-18 16:02:15.551][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-18 16:02:15.552][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-18 16:02:15.552][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-18 16:02:15.553][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-18 16:02:15.554][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-18 16:02:15.555][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-18 16:02:15.556][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-18 16:02:15.556][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-18 16:02:15.557][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-18 16:02:15.558][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-18 16:02:15.559][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-18 16:02:15.560][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:15.561][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-18 16:02:15.562][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:15.563][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-18 16:02:15.563][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:15.564][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-18 16:02:15.565][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-18 16:02:15.566][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-18 16:02:15.566][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-18 16:02:15.567][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-18 16:02:15.568][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-18 16:02:15.568][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-18 16:02:15.569][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-18 16:02:15.570][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-18 16:02:15.571][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:15.571][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-18 16:02:15.572][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-18 16:02:15.573][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-18 16:02:15.574][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-18 16:02:15.574][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-18 16:02:15.575][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-18 16:02:15.576][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-18 16:02:15.577][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-18 16:02:15.577][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-18 16:02:15.578][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-18 16:02:15.579][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-18 16:02:15.580][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-18 16:02:15.580][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-18 16:02:15.581][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-18 16:02:15.583][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:15.583][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-18 16:02:15.584][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:15.585][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-18 16:02:15.586][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:15.586][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-18 16:02:15.587][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-18 16:02:15.588][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-18 16:02:15.589][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-18 16:02:15.589][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-18 16:02:15.590][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-18 16:02:15.591][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-18 16:02:15.592][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-18 16:02:15.592][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-18 16:02:15.593][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:15.594][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-18 16:02:15.599][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-18 16:02:15.600][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-18 16:02:15.600][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-18 16:02:15.601][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-18 16:02:15.602][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-18 16:02:15.602][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-18 16:02:15.603][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-18 16:02:15.604][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-18 16:02:15.604][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-18 16:02:15.605][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-18 16:02:15.606][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-18 16:02:15.606][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-18 16:02:15.607][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-18 16:02:15.608][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-18 16:02:15.609][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:15.611][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:15.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.612][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:15.613][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:15.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:15.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.616][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:15.617][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:15.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:15.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.619][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:15.620][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:15.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:15.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.623][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:15.624][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:15.625][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:15.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.627][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:15.628][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:15.629][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:15.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.631][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:15.631][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:15.632][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:15.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.634][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:15.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:15.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:15.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.638][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:15.638][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:15.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:15.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.641][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:15.642][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:15.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:15.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.645][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:15.645][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:15.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:15.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.648][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-18 16:02:15.649][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:15.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:15.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.652][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:15.653][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:15.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:15.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.655][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:15.656][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:15.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:15.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.659][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:15.659][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:15.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:15.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.662][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:15.663][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:15.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:15.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-18 16:02:15.666][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-18 16:02:15.667][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-18 16:02:15.668][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-18 16:02:15.669][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-18 16:02:15.670][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-18 16:02:15.671][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-18 16:02:15.672][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-18 16:02:15.673][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-18 16:02:15.674][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-18 16:02:15.676][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-18 16:02:15.677][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-18 16:02:15.678][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-18 16:02:15.679][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-18 16:02:15.680][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-18 16:02:15.681][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-18 16:02:15.682][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-18 16:02:15.683][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-18 16:02:15.684][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-18 16:02:15.689][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-18 16:02:15.690][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-18 16:02:15.691][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-18 16:02:15.692][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-18 16:02:15.693][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-18 16:02:15.694][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-18 16:02:15.695][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-18 16:02:15.696][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-18 16:02:15.697][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-18 16:02:15.698][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-18 16:02:15.699][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-18 16:02:15.700][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-18 16:02:15.701][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-18 16:02:15.702][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-18 16:02:15.703][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-18 16:02:15.704][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-18 16:02:15.705][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-18 16:02:15.706][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-18 16:02:15.707][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-18 16:02:15.708][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-18 16:02:15.710][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-18 16:02:15.711][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-18 16:02:15.712][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-18 16:02:15.713][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-18 16:02:15.714][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-18 16:02:15.715][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-18 16:02:15.716][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-18 16:02:15.717][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-18 16:02:15.718][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-18 16:02:15.719][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-18 16:02:15.720][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-18 16:02:15.721][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-18 16:02:15.722][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-18 16:02:15.723][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-18 16:02:15.724][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-18 16:02:15.725][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-18 16:02:15.726][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-18 16:02:15.727][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-18 16:02:15.728][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-18 16:02:15.729][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-18 16:02:15.730][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-18 16:02:15.731][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-18 16:02:15.732][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-18 16:02:15.733][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-18 16:02:15.734][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-18 16:02:15.735][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-18 16:02:15.736][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-18 16:02:15.737][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-18 16:02:15.738][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-18 16:02:15.739][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-18 16:02:15.740][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-18 16:02:15.741][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-18 16:02:15.742][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-18 16:02:15.743][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-18 16:02:15.744][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-18 16:02:15.745][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-18 16:02:15.746][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-18 16:02:15.747][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-18 16:02:15.748][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-18 16:02:15.749][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-18 16:02:15.750][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-18 16:02:15.751][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-18 16:02:15.752][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-18 16:02:15.753][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-18 16:02:15.754][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-18 16:02:15.755][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-18 16:02:15.757][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-18 16:02:15.758][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-18 16:02:15.759][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:15.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:15.760][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.761][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:15.762][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-18 16:02:15.763][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-18 16:02:15.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:15.765][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:15.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.766][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:15.767][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-18 16:02:15.768][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-18 16:02:15.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:15.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:15.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-18 16:02:15.772][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.777][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-18 16:02:15.778][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-18 16:02:15.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:15.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:15.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-18 16:02:15.782][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-18 16:02:15.783][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-18 16:02:15.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:15.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:15.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.786][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:15.787][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-18 16:02:15.788][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-18 16:02:15.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:15.790][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:15.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.791][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-18 16:02:15.792][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-18 16:02:15.793][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-18 16:02:15.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:15.794][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:15.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.796][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:15.796][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-18 16:02:15.798][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-18 16:02:15.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:15.799][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:15.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.800][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:15.801][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-18 16:02:15.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-18 16:02:15.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:15.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:15.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.805][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:15.806][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-18 16:02:15.808][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-18 16:02:15.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:15.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:15.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.811][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:15.811][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-18 16:02:15.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-18 16:02:15.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:15.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:15.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.815][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:15.816][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-18 16:02:15.817][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-18 16:02:15.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:15.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:15.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-18 16:02:15.821][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-18 16:02:15.822][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-18 16:02:15.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:15.823][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:15.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.825][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:15.825][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-18 16:02:15.827][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-18 16:02:15.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:15.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:15.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.830][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:15.830][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-18 16:02:15.832][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-18 16:02:15.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:15.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:15.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.834][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:15.835][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-18 16:02:15.836][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-18 16:02:15.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:15.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:15.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.839][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:15.840][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-18 16:02:15.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-18 16:02:15.841][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-18 16:02:15.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:15.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:15.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.844][FUN] Functions in observer BiodbConfig: [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[2025-10-18 16:02:15.845][biodb$loadDefinitions] Load definitions from file "/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbNci.Rcheck/biodbNci/definitions.yml".
biodb.DEBUG[2025-10-18 16:02:15.846][self$getDbsInfo()$define] Define connector nci.cactus.
biodb.DEBUG[2025-10-18 16:02:15.848][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-18 16:02:15.849][self$setPropertyValue] Setting property "description" to "National Cancer Institute (USA) CACTUS Database.".
biodb.DEBUG[2025-10-18 16:02:15.850][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:15.850][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-18 16:02:15.851][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-10-18 16:02:15.852][self$setPropertyValue] Setting property "dwnld.ext" to "gz".
biodb.DEBUG[2025-10-18 16:02:15.853][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:15.854][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-18 16:02:15.854][self$setPropertyValue] Setting property "entry.content.type" to "sdf".
biodb.DEBUG[2025-10-18 16:02:15.855][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-18 16:02:15.856][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:15.857][self$setPropertyValue] Setting property "name" to "NCI CACTUS".
biodb.DEBUG[2025-10-18 16:02:15.857][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-18 16:02:15.858][self$setPropertyValue] Setting property "parsing.expr" to "NSC".
biodb.DEBUG[2025-10-18 16:02:15.858][self$setPropertyValue] Setting property "parsing.expr" to "DTP names".
biodb.DEBUG[2025-10-18 16:02:15.858][self$setPropertyValue] Setting property "parsing.expr" to "Standard InChI".
biodb.DEBUG[2025-10-18 16:02:15.858][self$setPropertyValue] Setting property "parsing.expr" to "c("Standard InChIKey", "^InChIKey=(.*)$")".
biodb.DEBUG[2025-10-18 16:02:15.858][self$setPropertyValue] Setting property "parsing.expr" to "Formula".
biodb.DEBUG[2025-10-18 16:02:15.858][self$setPropertyValue] Setting property "parsing.expr" to "Molecular Weight".
biodb.DEBUG[2025-10-18 16:02:15.858][self$setPropertyValue] Setting property "parsing.expr" to "CAS".
biodb.DEBUG[2025-10-18 16:02:15.859][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-18 16:02:15.860][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-18 16:02:15.861][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-18 16:02:15.861][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-18 16:02:15.862][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-18 16:02:15.863][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-18 16:02:15.867][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-18 16:02:15.868][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-18 16:02:15.869][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-18 16:02:15.870][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/".
biodb.DEBUG[2025-10-18 16:02:15.870][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/".
biodb.DEBUG[2025-10-18 16:02:15.870][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/download/nci/".
biodb.DEBUG[2025-10-18 16:02:15.870][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/download/nci/NCI-Open_2012-05-01.sdf.gz".
biodb.DEBUG[2025-10-18 16:02:15.870][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-18 16:02:15.871][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-18 16:02:15.872][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-18 16:02:15.873][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-18 16:02:15.873][self$getEntryFields()$define] Define field nci.cactus.id.
biodb.DEBUG[2025-10-18 16:02:15.876][super$initialize] Initialize connector nci.cactus.
biodb.DEBUG[2025-10-18 16:02:15.879][biodb$getFactory()$createConn] Creating new connector nci.cactus for database class nci.cactus .
biodb.INFO [2025-10-18 16:02:15.880][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-18 16:02:15.881][self$deleteConn] Connector "nci.cactus" deleted.
biodb.DEBUG[2025-10-18 16:02:15.882][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-18 16:02:15.883][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-18 16:02:15.883][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-18 16:02:15.884][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-18 16:02:15.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-18 16:02:15.886][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-18 16:02:15.887][FUN] Functions in observer 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 2 | WARN 0 | SKIP 0 | PASS 85 ]

══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test_long_100_generic.R:37:1'): RT unit is defined when there is an RT value. ──
Error in `private$doExtractDownload()`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<NcCctsCn>`, opt = `<named list>`)
 3.   └─conn$getBiodb()$getFactory()$getEntry(...)
 4.     └─private$loadEntries(conn$getId(), missing.ids, drop = FALSE)
 5.       └─conn$getEntryContent(ids)
 6.         └─self$download()
 7.           └─private$doExtractDownload()
── Error ('test_long_100_generic.R:37:1'): We can load an entry from the database. ──
Error in `cch$getTmpFolderPath()`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<NcCctsCn>`, opt = `<named list>`)
 3.   └─opt$refEntries$getRealEntry(id)
 4.     └─self$getRealEntries(ids = id)
 5.       └─private$bdb$getFactory()$getEntry(...)
 6.         └─private$loadEntries(conn$getId(), missing.ids, drop = FALSE)
 7.           └─conn$getEntryContent(ids)
 8.             └─self$download()
 9.               └─private$doExtractDownload()

[ FAIL 2 | WARN 0 | SKIP 0 | PASS 85 ]
Error: Test failures
Execution halted

'R CMD check' output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbNci_1.13.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbNci.Rcheck’
* using R version 4.5.1 Patched (2025-09-10 r88807)
* using platform: x86_64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Monterey 12.7.6
* using session charset: UTF-8
* using options ‘--no-codoc --no-examples --no-manual --ignore-vignettes --no-stop-on-test-error’
* checking for file ‘biodbNci/DESCRIPTION’ ... OK
* this is package ‘biodbNci’ version ‘1.13.1’
* 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 ‘biodbNci’ can be installed ... OK
* used C++ compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’
* used SDK: ‘MacOSX11.3.1.sdk’
* 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 whether startup messages can be suppressed ... 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 ... NOTE
Found the following Rd file(s) with Rd \link{} targets missing package
anchors:
  NciCactusConn.Rd: BiodbConn
  NciCactusEntry.Rd: BiodbSdfEntry
Please provide package anchors for all Rd \link{} targets not in the
package itself and the base packages.
* 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 line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... 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:
  Backtrace:
      ▆
   1. ├─base::do.call(fct, params)
   2. └─biodb (local) `<fn>`(conn = `<NcCctsCn>`, opt = `<named list>`)
   3.   └─opt$refEntries$getRealEntry(id)
   4.     └─self$getRealEntries(ids = id)
   5.       └─private$bdb$getFactory()$getEntry(...)
   6.         └─private$loadEntries(conn$getId(), missing.ids, drop = FALSE)
   7.           └─conn$getEntryContent(ids)
   8.             └─self$download()
   9.               └─private$doExtractDownload()
  
  [ FAIL 2 | WARN 0 | SKIP 0 | PASS 85 ]
  Error: Test failures
  Execution halted
* DONE

Status: 1 ERROR, 1 NOTE
See
  ‘/Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbNci.Rcheck/00check.log’
for details.

Installation output

biodbNci.Rcheck/00install.out

* installing *source* package ‘biodbNci’ ...
** this is package ‘biodbNci’ version ‘1.13.1’
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’
using SDK: ‘MacOSX11.3.1.sdk’
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c RcppExports.cpp -o RcppExports.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c extractEntries.cpp -o extractEntries.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-100-example.cpp -o test-100-example.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-runner.cpp -o test-runner.o
clang++ -arch x86_64 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/x86_64/lib -o biodbNci.so RcppExports.o extractEntries.o test-100-example.o test-runner.o -F/Library/Frameworks/R.framework/.. -framework R
installing to /Users/biocbuild/bbs-3.22-bioc-longtests/meat/biodbNci.Rcheck/00LOCK-biodbNci/00new/biodbNci/libs
** 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
Warning in fun(libname, pkgname) :
  Package 'biodbNci' is deprecated and will be removed from Bioconductor
  version 3.23
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
Warning in fun(libname, pkgname) :
  Package 'biodbNci' is deprecated and will be removed from Bioconductor
  version 3.23
** testing if installed package keeps a record of temporary installation path
* DONE (biodbNci)