Back to Long Tests report for BioC 3.21

This page was generated on 2025-04-12 23:55 -0400 (Sat, 12 Apr 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.1 LTS)x86_644.5.0 RC (2025-04-04 r88126) -- "How About a Twenty-Six" 4634
palomino7Windows Server 2022 Datacenterx644.5.0 RC (2025-04-04 r88126 ucrt) -- "How About a Twenty-Six" 4572
lconwaymacOS 12.7.1 Montereyx86_644.5.0 RC (2025-04-04 r88126) -- "How About a Twenty-Six" 4599
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 9/30HostnameOS / ArchCHECK
biodbNci 1.11.0  (landing page)
Pierrick Roger
Snapshot Date: 2025-04-12 09:55 -0400 (Sat, 12 Apr 2025)
git_url: https://git.bioconductor.org/packages/biodbNci
git_branch: devel
git_last_commit: 10e1a05
git_last_commit_date: 2024-10-29 11:09:24 -0400 (Tue, 29 Oct 2024)
nebbiolo1Linux (Ubuntu 24.04.1 LTS) / x86_64  OK  
palomino7Windows Server 2022 Datacenter / x64  ERROR  
lconwaymacOS 12.7.1 Monterey / x86_64  OK  

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: 1.11.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbNci_1.11.0.tar.gz
StartedAt: 2025-04-12 16:01:09 -0400 (Sat, 12 Apr 2025)
EndedAt: 2025-04-12 16:26:42 -0400 (Sat, 12 Apr 2025)
EllapsedTime: 1532.3 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbNci.Rcheck
Warnings: 0

Tests output

biodbNci.Rcheck/tests/testthat.Rout


R version 4.5.0 RC (2025-04-04 r88126) -- "How About a Twenty-Six"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin20

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Type 'demo()' for some demos, 'help()' for on-line help, or
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> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbNci)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbNci")
biodb.INFO [2025-04-12 16:02:01.374][biodb::testContext]
biodb.INFO [2025-04-12 16:02:01.377][biodb::testContext] ********************************************************************************
biodb.INFO [2025-04-12 16:02:01.377][biodb::testContext] Test context - Generic long tests
biodb.INFO [2025-04-12 16:02:01.378][biodb::testContext] ********************************************************************************
biodb.INFO [2025-04-12 16:02:01.379][biodb::testContext]
biodb.INFO [2025-04-12 16:02:01.384][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-04-12 16:02:01.385][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-04-12 16:02:01.390][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-04-12 16:02:01.391][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-04-12 16:02:01.392][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-04-12 16:02:01.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.395][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-04-12 16:02:01.409][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-04-12 16:02:01.410][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.412][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-04-12 16:02:01.412][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-04-12 16:02:01.413][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.415][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-04-12 16:02:01.416][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-04-12 16:02:01.417][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-04-12 16:02:01.418][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.420][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-04-12 16:02:01.420][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-04-12 16:02:01.421][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-04-12 16:02:01.422][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.423][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.424][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-04-12 16:02:01.424][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-04-12 16:02:01.425][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.427][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-04-12 16:02:01.428][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-04-12 16:02:01.428][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-04-12 16:02:01.429][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.431][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-04-12 16:02:01.432][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-04-12 16:02:01.432][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.434][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[2025-04-12 16:02:01.434][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-04-12 16:02:01.435][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-04-12 16:02:01.436][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-04-12 16:02:01.436][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.438][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-04-12 16:02:01.439][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-04-12 16:02:01.440][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-04-12 16:02:01.441][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-04-12 16:02:01.442][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-04-12 16:02:01.442][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-04-12 16:02:01.443][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.445][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-04-12 16:02:01.446][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-04-12 16:02:01.446][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.448][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-04-12 16:02:01.449][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-04-12 16:02:01.450][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.451][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[2025-04-12 16:02:01.452][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-04-12 16:02:01.453][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-04-12 16:02:01.454][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.456][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-04-12 16:02:01.456][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-04-12 16:02:01.457][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.458][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.459][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-04-12 16:02:01.460][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-04-12 16:02:01.461][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.463][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-04-12 16:02:01.464][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-04-12 16:02:01.481][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-04-12 16:02:01.482][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.484][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-04-12 16:02:01.485][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-04-12 16:02:01.486][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-04-12 16:02:01.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.488][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.490][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-04-12 16:02:01.514][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-04-12 16:02:01.532][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-04-12 16:02:01.532][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-12 16:02:01.533][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-12 16:02:01.534][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-12 16:02:01.535][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-12 16:02:01.536][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-12 16:02:01.536][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-12 16:02:01.537][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-04-12 16:02:01.538][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-12 16:02:01.539][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-04-12 16:02:01.539][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-04-12 16:02:01.540][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-12 16:02:01.541][self$setPropertyValue]
biodb.DEBUG[2025-04-12 16:02:01.542][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-12 16:02:01.542][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-04-12 16:02:01.542][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-04-12 16:02:01.542][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-04-12 16:02:01.542][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-04-12 16:02:01.542][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-04-12 16:02:01.543][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-12 16:02:01.544][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-12 16:02:01.545][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-12 16:02:01.546][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-12 16:02:01.546][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-12 16:02:01.547][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-12 16:02:01.548][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-12 16:02:01.548][self$setPropertyValue]
biodb.DEBUG[2025-04-12 16:02:01.549][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-12 16:02:01.550][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-12 16:02:01.550][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-12 16:02:01.551][self$setPropertyValue]
biodb.DEBUG[2025-04-12 16:02:01.552][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-04-12 16:02:01.553][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-04-12 16:02:01.554][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-04-12 16:02:01.554][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-12 16:02:01.555][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-12 16:02:01.556][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-12 16:02:01.557][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-12 16:02:01.557][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-12 16:02:01.558][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-12 16:02:01.559][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-04-12 16:02:01.559][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-12 16:02:01.560][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-04-12 16:02:01.561][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-04-12 16:02:01.562][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-12 16:02:01.562][self$setPropertyValue]
biodb.DEBUG[2025-04-12 16:02:01.563][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-12 16:02:01.564][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-04-12 16:02:01.564][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-04-12 16:02:01.564][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-04-12 16:02:01.564][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-04-12 16:02:01.564][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-04-12 16:02:01.564][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-12 16:02:01.565][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-12 16:02:01.566][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-12 16:02:01.566][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-12 16:02:01.567][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-12 16:02:01.568][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-12 16:02:01.568][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-12 16:02:01.569][self$setPropertyValue]
biodb.DEBUG[2025-04-12 16:02:01.570][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-12 16:02:01.570][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-12 16:02:01.571][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-12 16:02:01.572][self$setPropertyValue]
biodb.DEBUG[2025-04-12 16:02:01.573][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-04-12 16:02:01.574][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-04-12 16:02:01.575][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-04-12 16:02:01.575][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-12 16:02:01.576][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-12 16:02:01.577][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-12 16:02:01.577][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-12 16:02:01.578][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-12 16:02:01.579][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-12 16:02:01.579][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-04-12 16:02:01.580][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-12 16:02:01.581][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-04-12 16:02:01.581][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-04-12 16:02:01.582][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-12 16:02:01.583][self$setPropertyValue]
biodb.DEBUG[2025-04-12 16:02:01.584][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-12 16:02:01.584][self$setPropertyValue]
biodb.DEBUG[2025-04-12 16:02:01.585][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-12 16:02:01.586][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-12 16:02:01.587][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-12 16:02:01.587][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-12 16:02:01.588][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-12 16:02:01.589][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-12 16:02:01.589][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-12 16:02:01.590][self$setPropertyValue]
biodb.DEBUG[2025-04-12 16:02:01.591][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-12 16:02:01.592][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-12 16:02:01.592][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-12 16:02:01.593][self$setPropertyValue]
biodb.DEBUG[2025-04-12 16:02:01.594][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-04-12 16:02:01.595][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-04-12 16:02:01.596][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-04-12 16:02:01.597][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-12 16:02:01.597][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-12 16:02:01.598][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-12 16:02:01.599][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-12 16:02:01.600][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-12 16:02:01.600][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-12 16:02:01.601][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-04-12 16:02:01.602][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-12 16:02:01.603][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-04-12 16:02:01.603][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-04-12 16:02:01.604][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-12 16:02:01.605][self$setPropertyValue]
biodb.DEBUG[2025-04-12 16:02:01.606][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-12 16:02:01.606][self$setPropertyValue]
biodb.DEBUG[2025-04-12 16:02:01.607][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-12 16:02:01.608][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-12 16:02:01.609][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-12 16:02:01.609][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-12 16:02:01.610][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-12 16:02:01.611][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-12 16:02:01.611][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-12 16:02:01.612][self$setPropertyValue]
biodb.DEBUG[2025-04-12 16:02:01.613][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-12 16:02:01.613][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-12 16:02:01.614][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-12 16:02:01.615][self$setPropertyValue]
biodb.DEBUG[2025-04-12 16:02:01.617][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-04-12 16:02:01.618][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.619][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[2025-04-12 16:02:01.620][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:01.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:01.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.623][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:01.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:01.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:01.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:01.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.629][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[2025-04-12 16:02:01.629][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:01.631][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:01.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.632][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.633][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:01.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:01.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.636][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:01.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:01.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.639][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:01.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:01.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.642][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[2025-04-12 16:02:01.643][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:01.644][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:01.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.645][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[2025-04-12 16:02:01.646][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:01.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:01.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.649][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:01.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:01.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.652][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[2025-04-12 16:02:01.653][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:01.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:01.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.659][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[2025-04-12 16:02:01.660][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:01.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:01.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.662][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[2025-04-12 16:02:01.663][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:01.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:01.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.666][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:01.667][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:01.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:01.670][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:01.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.672][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:01.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:01.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.675][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:01.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:01.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.678][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.679][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-04-12 16:02:01.682][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-04-12 16:02:01.683][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-04-12 16:02:01.684][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-04-12 16:02:01.685][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-04-12 16:02:01.686][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-04-12 16:02:01.687][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-04-12 16:02:01.688][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-04-12 16:02:01.689][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-04-12 16:02:01.691][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-04-12 16:02:01.692][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-04-12 16:02:01.693][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-04-12 16:02:01.694][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-04-12 16:02:01.695][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-04-12 16:02:01.696][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-04-12 16:02:01.697][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-04-12 16:02:01.698][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-04-12 16:02:01.699][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-04-12 16:02:01.700][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-04-12 16:02:01.701][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-04-12 16:02:01.702][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-04-12 16:02:01.704][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-04-12 16:02:01.705][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-04-12 16:02:01.706][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-04-12 16:02:01.707][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-04-12 16:02:01.708][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-04-12 16:02:01.709][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-04-12 16:02:01.710][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-04-12 16:02:01.711][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-04-12 16:02:01.712][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-04-12 16:02:01.713][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-04-12 16:02:01.714][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-04-12 16:02:01.715][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-04-12 16:02:01.716][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-04-12 16:02:01.717][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-04-12 16:02:01.719][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-04-12 16:02:01.720][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-04-12 16:02:01.721][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-04-12 16:02:01.722][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-04-12 16:02:01.723][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-04-12 16:02:01.724][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-04-12 16:02:01.725][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-04-12 16:02:01.726][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-04-12 16:02:01.727][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-04-12 16:02:01.728][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-04-12 16:02:01.730][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-04-12 16:02:01.731][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-04-12 16:02:01.732][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-04-12 16:02:01.733][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-04-12 16:02:01.734][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-04-12 16:02:01.735][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-04-12 16:02:01.736][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-04-12 16:02:01.737][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-04-12 16:02:01.738][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-04-12 16:02:01.739][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-04-12 16:02:01.740][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-04-12 16:02:01.741][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-04-12 16:02:01.742][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-04-12 16:02:01.743][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-04-12 16:02:01.744][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-04-12 16:02:01.745][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-04-12 16:02:01.747][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-04-12 16:02:01.748][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-04-12 16:02:01.749][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-04-12 16:02:01.750][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-04-12 16:02:01.751][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-04-12 16:02:01.752][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-04-12 16:02:01.754][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-04-12 16:02:01.755][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-04-12 16:02:01.756][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-04-12 16:02:01.757][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-04-12 16:02:01.758][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-04-12 16:02:01.759][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-04-12 16:02:01.760][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-04-12 16:02:01.762][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-04-12 16:02:01.763][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-04-12 16:02:01.764][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-04-12 16:02:01.765][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-04-12 16:02:01.766][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-04-12 16:02:01.767][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-04-12 16:02:01.769][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-04-12 16:02:01.770][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-04-12 16:02:01.771][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-04-12 16:02:01.775][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-04-12 16:02:01.776][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-04-12 16:02:01.779][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-04-12 16:02:01.779][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:01.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:01.780][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.781][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[2025-04-12 16:02:01.785][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:02:01.787][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:02:01.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:01.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:01.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.790][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:02:01.792][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:02:01.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:01.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:01.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.800][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:02:01.801][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:02:01.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:01.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:01.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:02:01.806][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:02:01.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:01.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:01.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.809][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:02:01.811][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:02:01.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:01.812][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:01.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.814][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:02:01.815][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:02:01.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:01.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:01.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.819][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:02:01.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:02:01.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:01.821][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:01.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.824][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:02:01.825][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:02:01.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:01.826][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:01.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.828][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:02:01.830][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:02:01.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:01.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:01.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.833][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:02:01.834][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:02:01.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:01.836][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:01.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.838][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:02:01.839][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:02:01.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:01.841][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:01.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.843][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.843][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:02:01.845][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:02:01.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:01.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:01.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.848][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:02:01.850][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:02:01.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:01.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:01.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.853][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:02:01.855][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:02:01.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:01.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:01.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.857][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[2025-04-12 16:02:01.858][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:02:01.860][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:02:01.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:01.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:01.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.863][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:02:01.864][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:02:01.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:01.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:01.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.867][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[2025-04-12 16:02:01.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:02:01.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:02:01.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:02:01.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:01.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:01.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:01.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:02:01.873][biodb$loadDefinitions] Load definitions from file "/Users/biocbuild/bbs-3.21-bioc-longtests/meat/biodbNci.Rcheck/biodbNci/definitions.yml".
biodb.DEBUG[2025-04-12 16:02:01.880][self$getDbsInfo()$define] Define connector nci.cactus.
biodb.DEBUG[2025-04-12 16:02:01.882][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-04-12 16:02:01.882][self$setPropertyValue] Setting property "description" to "National Cancer Institute (USA) CACTUS Database.".
biodb.DEBUG[2025-04-12 16:02:01.883][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-12 16:02:01.884][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-12 16:02:01.884][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-04-12 16:02:01.885][self$setPropertyValue] Setting property "dwnld.ext" to "gz".
biodb.DEBUG[2025-04-12 16:02:01.886][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-04-12 16:02:01.887][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-12 16:02:01.887][self$setPropertyValue] Setting property "entry.content.type" to "sdf".
biodb.DEBUG[2025-04-12 16:02:01.888][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-12 16:02:01.889][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-04-12 16:02:01.890][self$setPropertyValue] Setting property "name" to "NCI CACTUS".
biodb.DEBUG[2025-04-12 16:02:01.890][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-12 16:02:01.891][self$setPropertyValue] Setting property "parsing.expr" to "NSC".
biodb.DEBUG[2025-04-12 16:02:01.891][self$setPropertyValue] Setting property "parsing.expr" to "DTP names".
biodb.DEBUG[2025-04-12 16:02:01.891][self$setPropertyValue] Setting property "parsing.expr" to "Standard InChI".
biodb.DEBUG[2025-04-12 16:02:01.891][self$setPropertyValue] Setting property "parsing.expr" to "c("Standard InChIKey", "^InChIKey=(.*)$")".
biodb.DEBUG[2025-04-12 16:02:01.891][self$setPropertyValue] Setting property "parsing.expr" to "Formula".
biodb.DEBUG[2025-04-12 16:02:01.891][self$setPropertyValue] Setting property "parsing.expr" to "Molecular Weight".
biodb.DEBUG[2025-04-12 16:02:01.891][self$setPropertyValue] Setting property "parsing.expr" to "CAS".
biodb.DEBUG[2025-04-12 16:02:01.892][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-04-12 16:02:01.893][self$setPropertyValue]
biodb.DEBUG[2025-04-12 16:02:01.893][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-04-12 16:02:01.894][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-12 16:02:01.895][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-12 16:02:01.895][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-12 16:02:01.896][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-12 16:02:01.897][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-12 16:02:01.898][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-12 16:02:01.898][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/".
biodb.DEBUG[2025-04-12 16:02:01.898][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/".
biodb.DEBUG[2025-04-12 16:02:01.898][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/download/nci/".
biodb.DEBUG[2025-04-12 16:02:01.898][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/download/nci/NCI-Open_2012-05-01.sdf.gz".
biodb.DEBUG[2025-04-12 16:02:01.899][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-12 16:02:01.900][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-12 16:02:01.901][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-04-12 16:02:01.901][self$setPropertyValue]
biodb.DEBUG[2025-04-12 16:02:01.906][self$getEntryFields()$define] Define field nci.cactus.id.
biodb.DEBUG[2025-04-12 16:02:01.924][super$initialize] Initialize connector nci.cactus.
biodb.DEBUG[2025-04-12 16:02:01.925][super$initialize] Register connector nci.cactus with the request scheduler
biodb.DEBUG[2025-04-12 16:02:01.928][private$bdb$getRequestScheduler()$re ...] Register connector nci.cactus.
biodb.DEBUG[2025-04-12 16:02:01.931][private$addConnectorRules] Create new rule for URL "cactus.nci.nih.gov" of connector "nci.cactus".
biodb.DEBUG[2025-04-12 16:02:01.934][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-04-12 16:02:01.934][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-04-12 16:02:01.935][rule$addConnector] Connector "nci.cactus" is already listed in rule "cactus.nci.nih.gov".
biodb.DEBUG[2025-04-12 16:02:01.936][rule$addConnector] Connector "nci.cactus" is already listed in rule "cactus.nci.nih.gov".
biodb.DEBUG[2025-04-12 16:02:01.937][rule$addConnector] Connector "nci.cactus" is already listed in rule "cactus.nci.nih.gov".
biodb.DEBUG[2025-04-12 16:02:01.938][biodb$getFactory()$createConn] Creating new connector nci.cactus for database class nci.cactus .
biodb.INFO [2025-04-12 16:02:01.973][biodb::testThat]
biodb.INFO [2025-04-12 16:02:01.974][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-04-12 16:02:01.975][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-12 16:02:01.975][biodb::testThat]
biodb.TRACE[2025-04-12 16:02:01.978][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.21-bioc-longtests/meat/biodbNci.Rcheck/biodbNci/testref/entry-nci.cactus-749674-content.sdf".
biodb.DEBUG[2025-04-12 16:02:01.980][biodb$getFactory()$createEntryFromCo ...] Creating NCI CACTUS entries from 1 content(s).
biodb.DEBUG[2025-04-12 16:02:01.982][biodb$getFactory()$createEntryFromCo ...] Parsing 1 NCI CACTUS entries.
biodb.DEBUG[2025-04-12 16:02:01.988][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-12 16:02:01.988][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:02:01.989][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:02:02.000][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:02.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:02.002][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:02.002][FUN] Functions in observer BiodbConfig: [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[2025-04-12 16:02:02.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.031][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-12 16:02:02.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-12 16:02:02.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.052][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-12 16:02:02.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-12 16:02:02.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.056][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-12 16:02:02.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-12 16:02:02.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.059][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-12 16:02:02.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-12 16:02:02.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.063][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-12 16:02:02.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-12 16:02:02.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.066][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-12 16:02:02.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-12 16:02:02.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.069][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-12 16:02:02.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-12 16:02:02.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.072][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-12 16:02:02.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-12 16:02:02.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.076][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:02:02.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:02:02.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.079][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:02:02.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:02:02.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.084][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:02:02.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:02:02.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.087][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.090][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.094][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.127][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.130][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-12 16:02:02.136][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 749674.
biodb.TRACE[2025-04-12 16:02:02.138][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-04-12 16:02:02.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-04-12 16:02:02.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.141][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-04-12 16:02:02.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-04-12 16:02:02.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.144][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-04-12 16:02:02.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-04-12 16:02:02.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.147][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-04-12 16:02:02.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-04-12 16:02:02.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.175][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:02:02.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:02:02.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.182][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.192][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.195][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.201][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:02:02.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:02:02.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.205][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:02:02.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:02:02.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.207][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:02:02.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:02:02.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.221][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.224][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.227][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.230][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.231][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.232][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.233][ef$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.233][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.244][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-12 16:02:02.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-12 16:02:02.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.248][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-12 16:02:02.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-12 16:02:02.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.251][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-12 16:02:02.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-12 16:02:02.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.254][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-12 16:02:02.255][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-12 16:02:02.256][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.256][ef$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.257][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-12 16:02:02.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-12 16:02:02.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.268][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-12 16:02:02.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-12 16:02:02.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.271][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-12 16:02:02.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-12 16:02:02.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.274][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-12 16:02:02.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-12 16:02:02.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.277][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-12 16:02:02.278][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-12 16:02:02.279][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.279][ef$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.280][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-12 16:02:02.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-12 16:02:02.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.290][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-12 16:02:02.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-12 16:02:02.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.294][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-12 16:02:02.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-12 16:02:02.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.297][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-12 16:02:02.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-12 16:02:02.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.300][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-12 16:02:02.300][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-12 16:02:02.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.302][ef$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.303][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-12 16:02:02.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-12 16:02:02.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.313][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-12 16:02:02.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-12 16:02:02.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.316][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-12 16:02:02.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-12 16:02:02.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.320][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-12 16:02:02.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-12 16:02:02.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.323][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-12 16:02:02.323][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-12 16:02:02.324][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.325][ef$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.325][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-12 16:02:02.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-12 16:02:02.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.335][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.336][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.340][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.341][ef$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.346][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-12 16:02:02.347][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-12 16:02:02.347][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.348][ef$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.352][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-12 16:02:02.353][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-12 16:02:02.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.354][ef$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.359][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-12 16:02:02.359][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-12 16:02:02.360][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.361][ef$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.365][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-12 16:02:02.366][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-12 16:02:02.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.367][ef$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.381][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.21-bioc-longtests/meat/biodbNci.Rcheck/biodbNci/testref/entry-nci.cactus-750690-content.sdf".
biodb.DEBUG[2025-04-12 16:02:02.405][biodb$getFactory()$createEntryFromCo ...] Creating NCI CACTUS entries from 1 content(s).
biodb.DEBUG[2025-04-12 16:02:02.406][biodb$getFactory()$createEntryFromCo ...] Parsing 1 NCI CACTUS entries.
biodb.DEBUG[2025-04-12 16:02:02.408][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-12 16:02:02.408][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:02:02.409][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:02:02.414][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:02:02.415][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:02:02.415][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:02:02.416][FUN] Functions in observer BiodbConfig: [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[2025-04-12 16:02:02.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.446][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-12 16:02:02.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-12 16:02:02.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.449][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-12 16:02:02.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-12 16:02:02.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.452][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-12 16:02:02.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-12 16:02:02.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.455][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-12 16:02:02.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-12 16:02:02.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.459][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-12 16:02:02.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-12 16:02:02.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.462][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-12 16:02:02.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-12 16:02:02.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.465][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-12 16:02:02.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-12 16:02:02.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.469][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-12 16:02:02.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-12 16:02:02.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.472][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-12 16:02:02.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-12 16:02:02.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.475][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-12 16:02:02.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-12 16:02:02.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.479][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-12 16:02:02.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-12 16:02:02.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.482][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-12 16:02:02.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-12 16:02:02.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.485][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-12 16:02:02.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-12 16:02:02.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.489][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-12 16:02:02.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-12 16:02:02.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.492][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-12 16:02:02.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-12 16:02:02.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.496][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-12 16:02:02.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-12 16:02:02.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.499][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-12 16:02:02.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-12 16:02:02.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.502][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:02:02.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:02:02.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.505][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:02:02.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:02:02.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.508][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.511][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:02:02.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:02:02.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.531][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-12 16:02:02.533][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 750690.
biodb.TRACE[2025-04-12 16:02:02.549][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-04-12 16:02:02.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-04-12 16:02:02.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.553][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-04-12 16:02:02.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-04-12 16:02:02.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.560][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-04-12 16:02:02.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-04-12 16:02:02.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.563][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-04-12 16:02:02.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-04-12 16:02:02.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.567][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.574][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:02:02.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:02:02.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.580][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.587][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.594][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.597][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.600][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:02:02.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:02:02.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.603][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:02:02.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:02:02.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.606][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:02:02.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:02:02.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.622][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.625][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.628][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.631][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.632][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.633][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.633][ef$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.644][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-12 16:02:02.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-12 16:02:02.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.648][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-12 16:02:02.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-12 16:02:02.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.651][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-12 16:02:02.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-12 16:02:02.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.654][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-12 16:02:02.654][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-12 16:02:02.655][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.656][ef$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.656][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-12 16:02:02.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-12 16:02:02.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.666][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-12 16:02:02.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-12 16:02:02.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.669][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-12 16:02:02.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-12 16:02:02.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.677][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-12 16:02:02.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-12 16:02:02.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.679][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-12 16:02:02.680][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-12 16:02:02.681][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.682][ef$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.682][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-12 16:02:02.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-12 16:02:02.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.692][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-12 16:02:02.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-12 16:02:02.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.695][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-12 16:02:02.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-12 16:02:02.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.698][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-12 16:02:02.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-12 16:02:02.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.701][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-12 16:02:02.702][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-12 16:02:02.703][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.704][ef$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.704][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-12 16:02:02.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-12 16:02:02.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.715][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-12 16:02:02.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-12 16:02:02.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.718][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-12 16:02:02.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-12 16:02:02.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.721][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-12 16:02:02.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-12 16:02:02.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.724][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-12 16:02:02.725][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-12 16:02:02.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.726][ef$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.727][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-12 16:02:02.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-12 16:02:02.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.737][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-12 16:02:02.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-12 16:02:02.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.740][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-12 16:02:02.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-12 16:02:02.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.743][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-12 16:02:02.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-12 16:02:02.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.746][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-12 16:02:02.746][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-12 16:02:02.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.748][ef$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.749][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-12 16:02:02.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-12 16:02:02.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.759][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-12 16:02:02.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-12 16:02:02.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.762][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-12 16:02:02.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-12 16:02:02.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.765][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-12 16:02:02.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-12 16:02:02.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.768][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-12 16:02:02.769][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-12 16:02:02.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.770][ef$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.771][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-12 16:02:02.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-12 16:02:02.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.781][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:02:02.782][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:02:02.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.784][ef$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.788][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-12 16:02:02.789][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-12 16:02:02.790][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.791][ef$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.799][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-12 16:02:02.800][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-12 16:02:02.800][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.801][ef$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.805][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-12 16:02:02.806][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-12 16:02:02.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.807][ef$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.811][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-12 16:02:02.812][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-12 16:02:02.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.814][ef$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.818][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-12 16:02:02.819][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-12 16:02:02.820][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.821][ef$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:02:02.825][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-12 16:02:02.826][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-12 16:02:02.827][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:02:02.827][ef$get] fields variable is a list.
biodb.INFO [2025-04-12 16:02:02.835][biodb::testThat]
biodb.INFO [2025-04-12 16:02:02.835][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-04-12 16:02:02.836][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-12 16:02:02.837][biodb::testThat]
biodb.DEBUG[2025-04-12 16:02:02.839][private$loadEntries] Creating entries from ids [2]: "749674, 750690".
biodb.DEBUG[2025-04-12 16:02:02.844][conn$getEntryContent] Get NCI CACTUS entry content(s) for 2 id(s)...
biodb.INFO [2025-04-12 16:02:02.847][self$getFolderPath] Create cache folder "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427" for "nci.cactus-8efc65070d01b214e760b1d4932ee427".
biodb.DEBUG[2025-04-12 16:02:02.848][self$isDownloaded] Database nci.cactus has not yet been downloaded.
biodb.INFO [2025-04-12 16:02:02.849][self$download] Downloading whole database of nci.cactus.
biodb.INFO [2025-04-12 16:02:02.850][private$doDownload] Downloading NCI CACTUS database at "https://cactus.nci.nih.gov/download/nci/NCI-Open_2012-05-01.sdf.gz" ...
biodb.DEBUG[2025-04-12 16:02:02.852][sched$downloadFile] Downloading file "https://cactus.nci.nih.gov/download/nci/NCI-Open_2012-05-01.sdf.gz".
trying URL 'https://cactus.nci.nih.gov/download/nci/NCI-Open_2012-05-01.sdf.gz'
Content type 'application/x-gzip' length 206737123 bytes (197.2 MB)
==================================================
downloaded 197.2 MB

biodb.TRACE[2025-04-12 16:02:37.733][cch$addFilesToCache] Moving files to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/nci.cactusbf621d57d332gz".
biodb.TRACE[2025-04-12 16:02:37.734][private$doAddFilesToCache] Destination files are [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/download.gz".
biodb.DEBUG[2025-04-12 16:02:37.735][cch$addFilesToCache] Done adding files.
biodb.DEBUG[2025-04-12 16:02:37.736][self$getDownloadPath] Download path of nci.cactus is "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/download.gz".
biodb.DEBUG[2025-04-12 16:02:37.737][self$download] Downloading of nci.cactus completed.
biodb.TRACE[2025-04-12 16:02:37.738][self$addFilesToCache] Moving files to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/markerbf6270ea86aamarker".
biodb.TRACE[2025-04-12 16:02:37.739][private$doAddFilesToCache] Destination files are [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/downloaded.marker".
biodb.DEBUG[2025-04-12 16:02:37.740][self$addFilesToCache] Done adding files.
biodb.DEBUG[2025-04-12 16:02:37.741][self$isDownloaded] Database nci.cactus has already been downloaded.
biodb.INFO [2025-04-12 16:02:37.742][self$download] Extract whole database of nci.cactus.
biodb.INFO [2025-04-12 16:02:37.743][private$doExtractDownload] Extracting content of downloaded biodbNci, a library for connecting to the National Cancer Institute (USA) CACTUS Database....
biodb.DEBUG[2025-04-12 16:02:37.744][self$getDownloadPath] Download path of nci.cactus is "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/download.gz".
biodb.DEBUG[2025-04-12 16:03:36.032][private$doExtractDownload] Delete existing entry files in cache system.
biodb.DEBUG[2025-04-12 16:03:36.033][private$doExtractDownload] Extract single entries from downloaded file "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/cactus_rdfs", into "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp".
biodb.TRACE[2025-04-12 16:24:48.083][self$addFilesToCache] Moving files to cache [265242]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/entry_1.txt, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/entry_2.txt, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/entry_3.txt, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/entry_4.txt, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/entry_5.txt, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/entry_6.txt, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/entry_7.txt, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/entry_8.txt, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/entry_9.txt, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/entry_10.txt, ...".
biodb.TRACE[2025-04-12 16:24:48.420][private$doAddFilesToCache] Destination files are [265242]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/1.sdf, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/2.sdf, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/3.sdf, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/4.sdf, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/5.sdf, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/6.sdf, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/7.sdf, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/8.sdf, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/9.sdf, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/10.sdf, ...".
biodb.DEBUG[2025-04-12 16:26:36.725][self$addFilesToCache] Done adding files.
biodb.DEBUG[2025-04-12 16:26:36.727][private$doExtractDownload] Delete extracted database.
biodb.TRACE[2025-04-12 16:26:36.784][self$addFilesToCache] Moving files to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/markerbf62352f3cd0marker".
biodb.TRACE[2025-04-12 16:26:36.787][private$doAddFilesToCache] Destination files are [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/extracted.marker".
biodb.DEBUG[2025-04-12 16:26:36.789][self$addFilesToCache] Done adding files.
biodb.TRACE[2025-04-12 16:26:36.792][cch$loadFileContent] Trying to load 2 files from cache: [2]: "749674, 750690".
biodb.TRACE[2025-04-12 16:26:36.795][cch$loadFileContent] file.exist = [2]: "TRUE, TRUE".
biodb.TRACE[2025-04-12 16:26:36.860][loadFileContents] Loaded 2 files from cache: [2]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/749674.sdf, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/750690.sdf".
biodb.DEBUG[2025-04-12 16:26:36.993][conn$getEntryContent] 2 NCI CACTUS entry content(s) loaded from cache.
biodb.DEBUG[2025-04-12 16:26:36.996][self$createEntryFromContent] Creating NCI CACTUS entries from 2 content(s).
biodb.DEBUG[2025-04-12 16:26:36.998][self$createEntryFromContent] Parsing 2 NCI CACTUS entries.
biodb.DEBUG[2025-04-12 16:26:37.001][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-12 16:26:37.002][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:26:37.004][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:26:37.081][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:37.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:37.084][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:37.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-12 16:26:37.094][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:26:37.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:26:37.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.099][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:26:37.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:26:37.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.106][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-12 16:26:37.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-12 16:26:37.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.110][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-12 16:26:37.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-12 16:26:37.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.114][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-12 16:26:37.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-12 16:26:37.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.117][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-12 16:26:37.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-12 16:26:37.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.122][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-12 16:26:37.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-12 16:26:37.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.125][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-12 16:26:37.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-12 16:26:37.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.129][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-12 16:26:37.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-12 16:26:37.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.133][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-12 16:26:37.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-12 16:26:37.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.136][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:26:37.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:26:37.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.140][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:26:37.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:26:37.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.143][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:26:37.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:26:37.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.146][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:26:37.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:26:37.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:26:37.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:26:37.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:26:37.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:26:37.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:26:37.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:26:37.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-12 16:26:37.160][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-12 16:26:37.161][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:26:37.162][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:26:37.167][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:37.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:37.169][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:37.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-12 16:26:37.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:26:37.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:26:37.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.181][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:26:37.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:26:37.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.186][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-12 16:26:37.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-12 16:26:37.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.189][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-12 16:26:37.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-12 16:26:37.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.193][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-12 16:26:37.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-12 16:26:37.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.196][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-12 16:26:37.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-12 16:26:37.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.200][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-12 16:26:37.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-12 16:26:37.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.203][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-12 16:26:37.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-12 16:26:37.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.207][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-12 16:26:37.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-12 16:26:37.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.210][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-12 16:26:37.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-12 16:26:37.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.214][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-12 16:26:37.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-12 16:26:37.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.218][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-12 16:26:37.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-12 16:26:37.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.221][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-12 16:26:37.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-12 16:26:37.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.224][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-12 16:26:37.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-12 16:26:37.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.228][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-12 16:26:37.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-12 16:26:37.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.233][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-12 16:26:37.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-12 16:26:37.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.236][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-12 16:26:37.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-12 16:26:37.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.240][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-12 16:26:37.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-12 16:26:37.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.244][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-12 16:26:37.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-12 16:26:37.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.249][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:26:37.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:26:37.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.253][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:26:37.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:26:37.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:26:37.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:26:37.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.260][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:26:37.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-04-12 16:26:37.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:26:37.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:26:37.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.267][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:26:37.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:26:37.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:26:37.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:26:37.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.274][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:26:37.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:26:37.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:26:37.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:26:37.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:26:37.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:26:37.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.284][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:26:37.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:26:37.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:26:37.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:26:37.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.291][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-12 16:26:37.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-12 16:26:37.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-12 16:26:37.294][self$createEntryFromContent] Accession numbers: 749674, 750690.
biodb.TRACE[2025-04-12 16:26:37.295][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-04-12 16:26:37.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-04-12 16:26:37.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.298][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-04-12 16:26:37.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-04-12 16:26:37.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.302][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-04-12 16:26:37.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-04-12 16:26:37.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.310][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-04-12 16:26:37.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-04-12 16:26:37.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.314][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-04-12 16:26:37.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-04-12 16:26:37.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.317][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-04-12 16:26:37.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-04-12 16:26:37.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-04-12 16:26:37.329][biodb::testThat]
biodb.INFO [2025-04-12 16:26:37.330][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-04-12 16:26:37.331][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-12 16:26:37.332][biodb::testThat]
biodb.INFO [2025-04-12 16:26:37.338][biodb::testThat]
biodb.INFO [2025-04-12 16:26:37.339][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-04-12 16:26:37.340][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-12 16:26:37.341][biodb::testThat]
biodb.WARN [2025-04-12 16:26:37.361][self$searchForEntries] This database is not searchable by field "name".
biodb.WARN [2025-04-12 16:26:37.378][self$searchForEntries] This database is not searchable by field "name".
biodb.INFO [2025-04-12 16:26:37.387][biodb::testThat]
biodb.INFO [2025-04-12 16:26:37.388][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-04-12 16:26:37.389][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-12 16:26:37.390][biodb::testThat]
biodb.TRACE[2025-04-12 16:26:37.412][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-04-12 16:26:37.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-04-12 16:26:37.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.415][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-04-12 16:26:37.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-04-12 16:26:37.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.419][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-04-12 16:26:37.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-04-12 16:26:37.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.422][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-04-12 16:26:37.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-04-12 16:26:37.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.453][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-04-12 16:26:37.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-04-12 16:26:37.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.456][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-04-12 16:26:37.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-04-12 16:26:37.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.460][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-04-12 16:26:37.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-04-12 16:26:37.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-12 16:26:37.463][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-04-12 16:26:37.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-04-12 16:26:37.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-12 16:26:37.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-04-12 16:26:37.473][biodb::testThat]
biodb.INFO [2025-04-12 16:26:37.474][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-04-12 16:26:37.474][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-12 16:26:37.475][biodb::testThat]
biodb.INFO [2025-04-12 16:26:37.483][biodb::testThat]
biodb.INFO [2025-04-12 16:26:37.483][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-04-12 16:26:37.484][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-12 16:26:37.485][biodb::testThat]
biodb.INFO [2025-04-12 16:26:37.492][biodb::testThat]
biodb.INFO [2025-04-12 16:26:37.493][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-04-12 16:26:37.494][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-12 16:26:37.494][biodb::testThat]
biodb.INFO [2025-04-12 16:26:37.501][biodb::testThat]
biodb.INFO [2025-04-12 16:26:37.502][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-04-12 16:26:37.503][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-12 16:26:37.504][biodb::testThat]
biodb.INFO [2025-04-12 16:26:37.510][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-04-12 16:26:37.511][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector nci.cactus from the request scheduler
biodb.INFO [2025-04-12 16:26:37.513][self$deleteConn] Connector "nci.cactus" deleted.
biodb.DEBUG[2025-04-12 16:26:37.513][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-04-12 16:26:37.514][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:26:37.515][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:26:37.516][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:37.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:37.517][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:37.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-04-12 16:26:37.549][biodb::testContext]
biodb.INFO [2025-04-12 16:26:37.550][biodb::testContext] ********************************************************************************
biodb.INFO [2025-04-12 16:26:37.551][biodb::testContext] Test context - Example long tests
biodb.INFO [2025-04-12 16:26:37.552][biodb::testContext] ********************************************************************************
biodb.INFO [2025-04-12 16:26:37.553][biodb::testContext]
biodb.INFO [2025-04-12 16:26:37.660][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-04-12 16:26:37.704][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-04-12 16:26:37.772][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-04-12 16:26:37.773][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-04-12 16:26:37.774][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-04-12 16:26:37.775][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:37.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:37.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:37.777][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-04-12 16:26:37.778][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-04-12 16:26:37.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:37.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:37.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:37.781][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-04-12 16:26:37.782][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-04-12 16:26:37.783][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:37.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:37.784][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:37.785][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-04-12 16:26:37.786][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-04-12 16:26:37.787][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-04-12 16:26:37.787][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:37.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:37.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:37.790][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-04-12 16:26:37.790][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-04-12 16:26:37.791][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-04-12 16:26:37.792][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:37.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:37.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:37.794][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-04-12 16:26:37.795][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-04-12 16:26:37.796][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:37.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:37.797][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:37.798][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-04-12 16:26:37.799][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-04-12 16:26:37.800][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-04-12 16:26:37.801][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:37.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:37.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:37.803][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-04-12 16:26:37.804][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-04-12 16:26:37.804][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:37.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:37.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:37.807][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-04-12 16:26:37.807][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-04-12 16:26:37.808][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-04-12 16:26:37.809][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:37.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:37.811][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[2025-04-12 16:26:37.811][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-04-12 16:26:37.812][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-04-12 16:26:37.813][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-04-12 16:26:37.814][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-04-12 16:26:37.815][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-04-12 16:26:37.815][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-04-12 16:26:37.816][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:37.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:37.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:37.818][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-04-12 16:26:37.819][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-04-12 16:26:37.820][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:37.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:37.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:37.822][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-04-12 16:26:37.823][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-04-12 16:26:37.824][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:37.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:37.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:37.826][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-04-12 16:26:37.827][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-04-12 16:26:37.828][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:37.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:37.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:37.830][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-04-12 16:26:37.831][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-04-12 16:26:37.831][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:37.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:37.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:37.834][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-04-12 16:26:37.834][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-04-12 16:26:37.835][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:37.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:37.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:37.837][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-04-12 16:26:37.838][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-04-12 16:26:39.709][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-04-12 16:26:39.711][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:39.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:39.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:39.714][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-04-12 16:26:39.715][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-04-12 16:26:39.716][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-04-12 16:26:39.717][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:39.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:39.719][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:39.720][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-04-12 16:26:39.745][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-04-12 16:26:39.746][self$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[2025-04-12 16:26:39.747][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-12 16:26:39.748][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-12 16:26:39.749][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-12 16:26:39.750][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-12 16:26:39.750][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-12 16:26:39.751][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-12 16:26:39.752][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-04-12 16:26:39.753][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-12 16:26:39.754][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-04-12 16:26:39.755][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-04-12 16:26:39.755][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-12 16:26:39.756][self$setPropertyValue]
biodb.DEBUG[2025-04-12 16:26:39.757][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-12 16:26:39.758][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-04-12 16:26:39.758][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-04-12 16:26:39.758][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-04-12 16:26:39.758][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-04-12 16:26:39.758][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-04-12 16:26:39.759][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-12 16:26:39.759][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-12 16:26:39.760][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-12 16:26:39.761][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-12 16:26:39.762][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-12 16:26:39.763][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-12 16:26:39.763][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-12 16:26:39.764][self$setPropertyValue]
biodb.DEBUG[2025-04-12 16:26:39.765][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-12 16:26:39.766][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-12 16:26:39.766][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-12 16:26:39.767][self$setPropertyValue]
biodb.DEBUG[2025-04-12 16:26:39.768][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-04-12 16:26:39.770][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-04-12 16:26:39.770][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-04-12 16:26:39.771][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-12 16:26:39.772][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-12 16:26:39.773][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-12 16:26:39.774][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-12 16:26:39.775][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-12 16:26:39.775][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-12 16:26:39.776][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-04-12 16:26:39.777][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-12 16:26:39.778][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-04-12 16:26:39.779][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-04-12 16:26:39.780][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-12 16:26:39.781][self$setPropertyValue]
biodb.DEBUG[2025-04-12 16:26:39.781][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-12 16:26:39.782][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-04-12 16:26:39.782][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-04-12 16:26:39.782][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-04-12 16:26:39.782][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-04-12 16:26:39.782][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-04-12 16:26:39.783][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-12 16:26:39.784][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-12 16:26:39.785][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-12 16:26:39.785][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-12 16:26:39.786][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-12 16:26:39.787][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-12 16:26:39.788][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-12 16:26:39.789][self$setPropertyValue]
biodb.DEBUG[2025-04-12 16:26:39.789][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-12 16:26:39.790][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-12 16:26:39.791][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-12 16:26:39.792][self$setPropertyValue]
biodb.DEBUG[2025-04-12 16:26:39.793][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-04-12 16:26:39.794][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-04-12 16:26:39.795][self$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[2025-04-12 16:26:39.796][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-12 16:26:39.797][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-12 16:26:39.797][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-12 16:26:39.798][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-12 16:26:39.799][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-12 16:26:39.800][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-12 16:26:39.801][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-04-12 16:26:39.801][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-12 16:26:39.802][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-04-12 16:26:39.803][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-04-12 16:26:39.804][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-12 16:26:39.805][self$setPropertyValue]
biodb.DEBUG[2025-04-12 16:26:39.805][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-12 16:26:39.806][self$setPropertyValue]
biodb.DEBUG[2025-04-12 16:26:39.807][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-12 16:26:39.808][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-12 16:26:39.808][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-12 16:26:39.809][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-12 16:26:39.810][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-12 16:26:39.811][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-12 16:26:39.811][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-12 16:26:39.812][self$setPropertyValue]
biodb.DEBUG[2025-04-12 16:26:39.813][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-12 16:26:39.814][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-12 16:26:39.815][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-12 16:26:39.815][self$setPropertyValue]
biodb.DEBUG[2025-04-12 16:26:39.816][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-04-12 16:26:39.818][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-04-12 16:26:39.819][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-04-12 16:26:39.819][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-12 16:26:39.820][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-12 16:26:39.821][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-12 16:26:39.822][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-12 16:26:39.823][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-12 16:26:39.823][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-12 16:26:39.824][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-04-12 16:26:39.825][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-12 16:26:39.826][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-04-12 16:26:39.827][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-04-12 16:26:39.827][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-12 16:26:39.828][self$setPropertyValue]
biodb.DEBUG[2025-04-12 16:26:39.829][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-12 16:26:39.830][self$setPropertyValue]
biodb.DEBUG[2025-04-12 16:26:39.831][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-12 16:26:39.831][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-12 16:26:39.832][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-12 16:26:39.833][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-12 16:26:39.834][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-12 16:26:39.834][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-12 16:26:39.835][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-12 16:26:39.836][self$setPropertyValue]
biodb.DEBUG[2025-04-12 16:26:39.837][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-12 16:26:39.837][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-12 16:26:39.838][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-12 16:26:39.839][self$setPropertyValue]
biodb.DEBUG[2025-04-12 16:26:39.840][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-04-12 16:26:39.841][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:39.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:39.842][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:39.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:39.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:39.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:39.845][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:39.846][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:39.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:39.848][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:39.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:39.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:39.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:39.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:39.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:39.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:39.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:39.853][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:39.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:39.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:39.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:39.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:39.857][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:39.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:39.858][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:39.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:39.860][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[2025-04-12 16:26:39.860][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:39.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:39.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:39.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:39.864][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[2025-04-12 16:26:39.864][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:39.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:39.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:39.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:39.867][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[2025-04-12 16:26:39.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:39.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:39.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:39.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:39.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:39.872][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:39.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:39.873][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:39.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:39.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:39.875][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:39.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:39.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:39.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:39.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:39.879][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:39.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:39.880][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:39.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:39.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:39.883][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:39.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:39.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:39.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:39.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:39.886][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:39.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:39.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:39.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:39.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:39.890][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:39.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:39.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:39.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:39.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:39.894][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:39.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:39.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:39.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:39.897][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:39.897][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:39.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:39.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:39.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:39.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:39.901][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:39.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:39.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:39.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:39.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:39.905][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-04-12 16:26:39.906][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-04-12 16:26:39.908][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-04-12 16:26:39.909][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-04-12 16:26:39.910][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-04-12 16:26:39.911][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-04-12 16:26:39.912][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-04-12 16:26:39.913][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-04-12 16:26:39.915][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-04-12 16:26:39.916][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-04-12 16:26:39.917][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-04-12 16:26:39.918][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-04-12 16:26:39.919][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-04-12 16:26:39.920][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-04-12 16:26:39.921][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-04-12 16:26:39.922][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-04-12 16:26:39.924][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-04-12 16:26:39.925][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-04-12 16:26:39.926][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-04-12 16:26:39.927][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-04-12 16:26:39.928][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-04-12 16:26:39.929][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-04-12 16:26:39.930][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-04-12 16:26:39.931][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-04-12 16:26:39.932][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-04-12 16:26:39.934][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-04-12 16:26:39.935][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-04-12 16:26:39.936][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-04-12 16:26:39.937][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-04-12 16:26:39.938][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-04-12 16:26:39.939][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-04-12 16:26:39.940][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-04-12 16:26:39.941][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-04-12 16:26:39.943][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-04-12 16:26:39.944][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-04-12 16:26:39.945][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-04-12 16:26:39.946][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-04-12 16:26:39.947][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-04-12 16:26:39.948][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-04-12 16:26:39.949][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-04-12 16:26:39.950][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-04-12 16:26:39.952][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-04-12 16:26:39.953][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-04-12 16:26:39.954][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-04-12 16:26:39.955][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-04-12 16:26:39.956][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-04-12 16:26:39.957][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-04-12 16:26:39.958][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-04-12 16:26:39.959][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-04-12 16:26:39.960][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-04-12 16:26:39.962][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-04-12 16:26:39.963][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-04-12 16:26:39.964][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-04-12 16:26:39.965][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-04-12 16:26:39.966][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-04-12 16:26:39.967][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-04-12 16:26:39.968][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-04-12 16:26:39.969][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-04-12 16:26:39.970][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-04-12 16:26:39.972][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-04-12 16:26:39.973][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-04-12 16:26:39.974][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-04-12 16:26:39.975][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-04-12 16:26:39.976][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-04-12 16:26:39.977][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-04-12 16:26:39.978][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-04-12 16:26:39.979][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-04-12 16:26:39.980][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-04-12 16:26:39.982][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-04-12 16:26:39.983][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-04-12 16:26:39.984][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-04-12 16:26:39.985][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-04-12 16:26:39.986][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-04-12 16:26:39.987][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-04-12 16:26:39.988][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-04-12 16:26:39.989][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-04-12 16:26:39.990][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-04-12 16:26:39.992][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-04-12 16:26:39.993][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-04-12 16:26:39.994][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-04-12 16:26:39.995][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-04-12 16:26:39.996][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-04-12 16:26:39.997][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-04-12 16:26:39.998][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-04-12 16:26:40.000][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-04-12 16:26:40.001][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-04-12 16:26:40.001][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:40.002][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:40.003][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:40.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:40.004][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:40.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:26:40.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:26:40.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:40.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:40.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:40.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:40.009][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:40.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:26:40.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:26:40.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:40.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:40.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:40.014][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[2025-04-12 16:26:40.014][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:40.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:26:40.016][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:26:40.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:40.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:40.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:40.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:40.019][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:40.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:26:40.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:26:40.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:40.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:40.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:40.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:40.024][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:40.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:26:40.026][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:26:40.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:40.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:40.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:40.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:40.029][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:40.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:26:40.031][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:26:40.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:40.032][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:40.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:40.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:40.034][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:40.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:26:40.036][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:26:40.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:40.037][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:40.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:40.039][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:40.039][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:40.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:26:40.041][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:26:40.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:40.042][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:40.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:40.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:40.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:40.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:26:40.046][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:26:40.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:40.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:40.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:40.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:40.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:40.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:26:40.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:26:40.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:40.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:40.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:40.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:40.054][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:40.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:26:40.056][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:26:40.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:40.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:40.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:40.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:40.059][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:40.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:26:40.061][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:26:40.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:40.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:40.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:40.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:40.064][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:40.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:26:40.066][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:26:40.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:40.067][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:40.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:40.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:40.069][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:40.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:26:40.071][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:26:40.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:40.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:40.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:40.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:40.074][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:40.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:26:40.076][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:26:40.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:40.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:40.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:40.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:40.079][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:40.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:26:40.081][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:26:40.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:40.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:40.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:40.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:40.084][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-12 16:26:40.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:26:40.086][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:26:40.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:40.087][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:40.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:40.089][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-12 16:26:40.198][biodb$loadDefinitions] Load definitions from file "/Users/biocbuild/bbs-3.21-bioc-longtests/meat/biodbNci.Rcheck/biodbNci/definitions.yml".
biodb.DEBUG[2025-04-12 16:26:40.222][self$getDbsInfo()$define] Define connector nci.cactus.
biodb.DEBUG[2025-04-12 16:26:40.224][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-04-12 16:26:40.225][self$setPropertyValue] Setting property "description" to "National Cancer Institute (USA) CACTUS Database.".
biodb.DEBUG[2025-04-12 16:26:40.226][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-12 16:26:40.226][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-12 16:26:40.227][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-04-12 16:26:40.228][self$setPropertyValue] Setting property "dwnld.ext" to "gz".
biodb.DEBUG[2025-04-12 16:26:40.229][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-04-12 16:26:40.230][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-12 16:26:40.231][self$setPropertyValue] Setting property "entry.content.type" to "sdf".
biodb.DEBUG[2025-04-12 16:26:40.232][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-12 16:26:40.232][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-04-12 16:26:40.233][self$setPropertyValue] Setting property "name" to "NCI CACTUS".
biodb.DEBUG[2025-04-12 16:26:40.234][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-12 16:26:40.235][self$setPropertyValue] Setting property "parsing.expr" to "NSC".
biodb.DEBUG[2025-04-12 16:26:40.235][self$setPropertyValue] Setting property "parsing.expr" to "DTP names".
biodb.DEBUG[2025-04-12 16:26:40.235][self$setPropertyValue] Setting property "parsing.expr" to "Standard InChI".
biodb.DEBUG[2025-04-12 16:26:40.235][self$setPropertyValue] Setting property "parsing.expr" to "c("Standard InChIKey", "^InChIKey=(.*)$")".
biodb.DEBUG[2025-04-12 16:26:40.235][self$setPropertyValue] Setting property "parsing.expr" to "Formula".
biodb.DEBUG[2025-04-12 16:26:40.235][self$setPropertyValue] Setting property "parsing.expr" to "Molecular Weight".
biodb.DEBUG[2025-04-12 16:26:40.235][self$setPropertyValue] Setting property "parsing.expr" to "CAS".
biodb.DEBUG[2025-04-12 16:26:40.236][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-04-12 16:26:40.236][self$setPropertyValue]
biodb.DEBUG[2025-04-12 16:26:40.237][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-04-12 16:26:40.238][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-12 16:26:40.239][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-12 16:26:40.240][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-12 16:26:40.240][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-12 16:26:40.241][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-12 16:26:40.242][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-12 16:26:40.243][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/".
biodb.DEBUG[2025-04-12 16:26:40.243][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/".
biodb.DEBUG[2025-04-12 16:26:40.243][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/download/nci/".
biodb.DEBUG[2025-04-12 16:26:40.243][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/download/nci/NCI-Open_2012-05-01.sdf.gz".
biodb.DEBUG[2025-04-12 16:26:40.243][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-12 16:26:40.244][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-12 16:26:40.245][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-04-12 16:26:40.246][self$setPropertyValue]
biodb.DEBUG[2025-04-12 16:26:40.247][self$getEntryFields()$define] Define field nci.cactus.id.
biodb.DEBUG[2025-04-12 16:26:40.250][super$initialize] Initialize connector nci.cactus.
biodb.DEBUG[2025-04-12 16:26:40.251][super$initialize] Register connector nci.cactus with the request scheduler
biodb.DEBUG[2025-04-12 16:26:40.252][private$bdb$getRequestScheduler()$re ...] Register connector nci.cactus.
biodb.DEBUG[2025-04-12 16:26:40.254][private$addConnectorRules] Create new rule for URL "cactus.nci.nih.gov" of connector "nci.cactus".
biodb.DEBUG[2025-04-12 16:26:40.255][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-04-12 16:26:40.256][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-04-12 16:26:40.257][rule$addConnector] Connector "nci.cactus" is already listed in rule "cactus.nci.nih.gov".
biodb.DEBUG[2025-04-12 16:26:40.258][rule$addConnector] Connector "nci.cactus" is already listed in rule "cactus.nci.nih.gov".
biodb.DEBUG[2025-04-12 16:26:40.259][rule$addConnector] Connector "nci.cactus" is already listed in rule "cactus.nci.nih.gov".
biodb.DEBUG[2025-04-12 16:26:40.259][biodb$getFactory()$createConn] Creating new connector nci.cactus for database class nci.cactus .
biodb.INFO [2025-04-12 16:26:40.260][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-04-12 16:26:40.261][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector nci.cactus from the request scheduler
biodb.INFO [2025-04-12 16:26:40.262][self$deleteConn] Connector "nci.cactus" deleted.
biodb.DEBUG[2025-04-12 16:26:40.263][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-04-12 16:26:40.263][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-12 16:26:40.264][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-12 16:26:40.265][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-12 16:26:40.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-12 16:26:40.266][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-04-12 16:26:40.267][FUN] Functions in observer 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 0 | WARN 0 | SKIP 0 | PASS 92 ]
> 
> proc.time()
    user   system  elapsed 
1061.278  239.453 1480.539

'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_1.11.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.21-bioc-longtests/meat/biodbNci.Rcheck’
* using R version 4.5.0 RC (2025-04-04 r88126)
* 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 ‘1.11.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbNci’ can be installed ... OK
* used C++ compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’
* used SDK: ‘MacOSX11.3.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 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’
 OK
* DONE

Status: 1 NOTE
See
  ‘/Users/biocbuild/bbs-3.21-bioc-longtests/meat/biodbNci.Rcheck/00check.log’
for details.

Installation output

biodbNci.Rcheck/00install.out

* installing *source* package ‘biodbNci’ ...
** this is package ‘biodbNci’ version ‘1.11.0’
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’
using SDK: ‘MacOSX11.3.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-3.21-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
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbNci)