Back to Long Tests report for BioC 3.21

This page was generated on 2025-07-26 23:55 -0400 (Sat, 26 Jul 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.2 LTS)x86_644.5.1 (2025-06-13) -- "Great Square Root" 4823
palomino7Windows Server 2022 Datacenterx644.5.1 (2025-06-13 ucrt) -- "Great Square Root" 4565
merida1macOS 12.7.5 Montereyx86_644.5.1 RC (2025-06-05 r88288) -- "Great Square Root" 4603
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 1.12.0  (landing page)
Pierrick Roger
Snapshot Date: 2025-07-26 09:55 -0400 (Sat, 26 Jul 2025)
git_url: https://git.bioconductor.org/packages/biodbNci
git_branch: RELEASE_3_21
git_last_commit: a398ae4
git_last_commit_date: 2025-04-15 12:47:37 -0400 (Tue, 15 Apr 2025)
nebbiolo1Linux (Ubuntu 24.04.2 LTS) / x86_64  OK  
palomino7Windows Server 2022 Datacenter / x64  ERROR  
merida1macOS 12.7.5 Monterey / x86_64  OK  

CHECK results for biodbNci on nebbiolo1

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: 1.12.0
Command: /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbNci_1.12.0.tar.gz
StartedAt: 2025-07-26 16:04:52 -0400 (Sat, 26 Jul 2025)
EndedAt: 2025-07-26 16:05:53 -0400 (Sat, 26 Jul 2025)
EllapsedTime: 61.1 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbNci.Rcheck
Warnings: 0

Tests output

biodbNci.Rcheck/tests/testthat.Rout


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Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu

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> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbNci)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbNci")
biodb.INFO [2025-07-26 16:05:50.081][biodb::testContext]
biodb.INFO [2025-07-26 16:05:50.083][biodb::testContext] ********************************************************************************
biodb.INFO [2025-07-26 16:05:50.084][biodb::testContext] Test context - Generic long tests
biodb.INFO [2025-07-26 16:05:50.085][biodb::testContext] ********************************************************************************
biodb.INFO [2025-07-26 16:05:50.086][biodb::testContext]
biodb.INFO [2025-07-26 16:05:50.091][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-07-26 16:05:50.093][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.21-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-07-26 16:05:50.100][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-07-26 16:05:50.101][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-07-26 16:05:50.102][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-07-26 16:05:50.103][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.105][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-07-26 16:05:50.122][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-07-26 16:05:50.123][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.125][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-07-26 16:05:50.126][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-07-26 16:05:50.127][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.130][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-07-26 16:05:50.131][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-07-26 16:05:50.132][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-07-26 16:05:50.133][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.135][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-07-26 16:05:50.136][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-07-26 16:05:50.137][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-07-26 16:05:50.138][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.141][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-07-26 16:05:50.142][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-07-26 16:05:50.142][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.145][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-07-26 16:05:50.146][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-07-26 16:05:50.147][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-07-26 16:05:50.148][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.150][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-07-26 16:05:50.151][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-07-26 16:05:50.152][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.155][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-07-26 16:05:50.156][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-07-26 16:05:50.157][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-07-26 16:05:50.157][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.160][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-07-26 16:05:50.161][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-07-26 16:05:50.162][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-07-26 16:05:50.163][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-07-26 16:05:50.164][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-07-26 16:05:50.165][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-07-26 16:05:50.166][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.168][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-07-26 16:05:50.169][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-07-26 16:05:50.170][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.173][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-07-26 16:05:50.174][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-07-26 16:05:50.174][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.177][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-07-26 16:05:50.178][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-07-26 16:05:50.179][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.182][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-07-26 16:05:50.183][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-07-26 16:05:50.183][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.186][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-07-26 16:05:50.187][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-07-26 16:05:50.188][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.189][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.190][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-07-26 16:05:50.191][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-07-26 16:05:50.195][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-07-26 16:05:50.196][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.199][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-07-26 16:05:50.200][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-07-26 16:05:50.201][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-07-26 16:05:50.201][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.206][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-07-26 16:05:50.242][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-07-26 16:05:50.256][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-07-26 16:05:50.257][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:50.258][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-07-26 16:05:50.259][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:50.260][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-07-26 16:05:50.261][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-07-26 16:05:50.262][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-07-26 16:05:50.263][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-07-26 16:05:50.264][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-07-26 16:05:50.265][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:50.266][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-07-26 16:05:50.267][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-07-26 16:05:50.268][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-07-26 16:05:50.269][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:50.270][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-07-26 16:05:50.270][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-07-26 16:05:50.270][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-07-26 16:05:50.270][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-07-26 16:05:50.270][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-07-26 16:05:50.271][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-07-26 16:05:50.272][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-07-26 16:05:50.273][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-07-26 16:05:50.273][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-07-26 16:05:50.274][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-07-26 16:05:50.275][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-07-26 16:05:50.276][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-07-26 16:05:50.277][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-07-26 16:05:50.278][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-07-26 16:05:50.279][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-07-26 16:05:50.280][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-07-26 16:05:50.281][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-07-26 16:05:50.282][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-07-26 16:05:50.283][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-07-26 16:05:50.284][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-07-26 16:05:50.285][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:50.286][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-07-26 16:05:50.287][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:50.288][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-07-26 16:05:50.289][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-07-26 16:05:50.290][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-07-26 16:05:50.291][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-07-26 16:05:50.292][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-07-26 16:05:50.293][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:50.294][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-07-26 16:05:50.295][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-07-26 16:05:50.296][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-07-26 16:05:50.297][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:50.298][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-07-26 16:05:50.298][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-07-26 16:05:50.298][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-07-26 16:05:50.298][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-07-26 16:05:50.298][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-07-26 16:05:50.299][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-07-26 16:05:50.300][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-07-26 16:05:50.300][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-07-26 16:05:50.301][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-07-26 16:05:50.302][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-07-26 16:05:50.303][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-07-26 16:05:50.304][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-07-26 16:05:50.305][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-07-26 16:05:50.306][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-07-26 16:05:50.307][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-07-26 16:05:50.308][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-07-26 16:05:50.309][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-07-26 16:05:50.310][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-07-26 16:05:50.311][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:50.312][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-07-26 16:05:50.313][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:50.314][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-07-26 16:05:50.315][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:50.316][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-07-26 16:05:50.317][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-07-26 16:05:50.318][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-07-26 16:05:50.319][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-07-26 16:05:50.320][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-07-26 16:05:50.321][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-07-26 16:05:50.322][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-07-26 16:05:50.323][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-07-26 16:05:50.324][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-07-26 16:05:50.324][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:50.325][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-07-26 16:05:50.326][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-07-26 16:05:50.327][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-07-26 16:05:50.328][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-07-26 16:05:50.329][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-07-26 16:05:50.330][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-07-26 16:05:50.331][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-07-26 16:05:50.332][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-07-26 16:05:50.333][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-07-26 16:05:50.334][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-07-26 16:05:50.334][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-07-26 16:05:50.335][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-07-26 16:05:50.336][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-07-26 16:05:50.337][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-07-26 16:05:50.339][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:50.340][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-07-26 16:05:50.341][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:50.342][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-07-26 16:05:50.343][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:50.344][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-07-26 16:05:50.345][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-07-26 16:05:50.346][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-07-26 16:05:50.347][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-07-26 16:05:50.348][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-07-26 16:05:50.349][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-07-26 16:05:50.349][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-07-26 16:05:50.350][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-07-26 16:05:50.351][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-07-26 16:05:50.352][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:50.353][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-07-26 16:05:50.354][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-07-26 16:05:50.355][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-07-26 16:05:50.356][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-07-26 16:05:50.357][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-07-26 16:05:50.358][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-07-26 16:05:50.359][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-07-26 16:05:50.360][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-07-26 16:05:50.361][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-07-26 16:05:50.361][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-07-26 16:05:50.362][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-07-26 16:05:50.363][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-07-26 16:05:50.364][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-07-26 16:05:50.368][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-07-26 16:05:50.369][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.370][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:50.372][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:50.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.375][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:50.376][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:50.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.379][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:50.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:50.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.382][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:50.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:50.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.387][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:50.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:50.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:50.393][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:50.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:50.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:50.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.400][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:50.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:50.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.404][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:50.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:50.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:50.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:50.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.416][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.DEBUG[2025-07-26 16:05:50.417][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:50.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:50.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.421][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:50.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:50.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.424][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.425][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:50.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:50.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.429][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:50.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:50.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:50.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:50.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.438][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:50.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:50.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.442][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:50.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:50.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.446][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-07-26 16:05:50.451][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-07-26 16:05:50.452][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-07-26 16:05:50.454][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-07-26 16:05:50.455][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-07-26 16:05:50.456][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-07-26 16:05:50.458][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-07-26 16:05:50.459][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-07-26 16:05:50.460][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-07-26 16:05:50.462][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-07-26 16:05:50.463][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-07-26 16:05:50.464][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-07-26 16:05:50.466][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-07-26 16:05:50.467][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-07-26 16:05:50.468][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-07-26 16:05:50.470][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-07-26 16:05:50.471][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-07-26 16:05:50.472][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-07-26 16:05:50.473][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-07-26 16:05:50.475][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-07-26 16:05:50.476][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-07-26 16:05:50.477][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-07-26 16:05:50.479][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-07-26 16:05:50.480][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-07-26 16:05:50.481][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-07-26 16:05:50.483][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-07-26 16:05:50.484][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-07-26 16:05:50.485][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-07-26 16:05:50.487][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-07-26 16:05:50.488][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-07-26 16:05:50.489][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-07-26 16:05:50.495][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-07-26 16:05:50.498][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-07-26 16:05:50.500][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-07-26 16:05:50.501][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-07-26 16:05:50.503][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-07-26 16:05:50.504][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-07-26 16:05:50.506][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-07-26 16:05:50.507][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-07-26 16:05:50.509][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-07-26 16:05:50.510][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-07-26 16:05:50.512][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-07-26 16:05:50.513][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-07-26 16:05:50.515][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-07-26 16:05:50.516][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-07-26 16:05:50.518][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-07-26 16:05:50.519][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-07-26 16:05:50.521][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-07-26 16:05:50.522][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-07-26 16:05:50.524][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-07-26 16:05:50.525][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-07-26 16:05:50.527][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-07-26 16:05:50.528][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-07-26 16:05:50.529][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-07-26 16:05:50.531][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-07-26 16:05:50.533][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-07-26 16:05:50.534][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-07-26 16:05:50.535][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-07-26 16:05:50.537][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-07-26 16:05:50.538][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-07-26 16:05:50.540][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-07-26 16:05:50.541][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-07-26 16:05:50.543][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-07-26 16:05:50.544][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-07-26 16:05:50.546][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-07-26 16:05:50.547][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-07-26 16:05:50.549][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-07-26 16:05:50.550][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-07-26 16:05:50.552][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-07-26 16:05:50.553][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-07-26 16:05:50.555][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-07-26 16:05:50.556][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-07-26 16:05:50.557][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-07-26 16:05:50.559][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-07-26 16:05:50.560][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-07-26 16:05:50.562][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-07-26 16:05:50.563][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-07-26 16:05:50.565][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-07-26 16:05:50.566][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-07-26 16:05:50.568][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-07-26 16:05:50.569][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-07-26 16:05:50.570][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-07-26 16:05:50.572][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-07-26 16:05:50.579][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-07-26 16:05:50.581][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-07-26 16:05:50.584][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-07-26 16:05:50.585][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:50.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:50.587][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:50.608][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:50.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:50.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:50.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:50.614][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:50.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:50.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:50.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:50.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:50.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:50.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:50.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:50.627][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:50.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:50.629][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:50.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.632][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:50.634][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:50.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:50.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:50.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.639][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:50.640][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:50.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:50.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:50.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.645][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:50.647][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:50.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:50.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:50.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.651][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:50.653][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:50.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:50.655][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:50.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.658][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:50.660][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:50.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:50.662][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:50.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.664][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:50.666][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:50.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:50.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:50.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.670][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.671][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:50.673][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:50.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:50.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:50.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.676][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.677][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:50.679][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:50.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:50.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:50.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:50.685][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:50.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:50.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:50.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.690][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:50.692][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:50.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:50.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:50.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.696][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:50.698][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:50.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:50.699][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:50.700][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.702][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:50.704][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:50.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:50.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:50.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:50.708][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:50.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:50.709][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:50.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:50.711][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:50.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.713][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[2025-07-26 16:05:50.715][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.21-bioc-longtests/meat/biodbNci.Rcheck/biodbNci/definitions.yml".
biodb.DEBUG[2025-07-26 16:05:50.724][self$getDbsInfo()$define] Define connector nci.cactus.
biodb.DEBUG[2025-07-26 16:05:50.725][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-07-26 16:05:50.726][self$setPropertyValue] Setting property "description" to "National Cancer Institute (USA) CACTUS Database.".
biodb.DEBUG[2025-07-26 16:05:50.727][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:50.728][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-07-26 16:05:50.729][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-07-26 16:05:50.730][self$setPropertyValue] Setting property "dwnld.ext" to "gz".
biodb.DEBUG[2025-07-26 16:05:50.731][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:50.732][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-07-26 16:05:50.733][self$setPropertyValue] Setting property "entry.content.type" to "sdf".
biodb.DEBUG[2025-07-26 16:05:50.734][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-07-26 16:05:50.735][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:50.736][self$setPropertyValue] Setting property "name" to "NCI CACTUS".
biodb.DEBUG[2025-07-26 16:05:50.737][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-07-26 16:05:50.738][self$setPropertyValue] Setting property "parsing.expr" to "NSC".
biodb.DEBUG[2025-07-26 16:05:50.738][self$setPropertyValue] Setting property "parsing.expr" to "DTP names".
biodb.DEBUG[2025-07-26 16:05:50.738][self$setPropertyValue] Setting property "parsing.expr" to "Standard InChI".
biodb.DEBUG[2025-07-26 16:05:50.738][self$setPropertyValue] Setting property "parsing.expr" to "c("Standard InChIKey", "^InChIKey=(.*)$")".
biodb.DEBUG[2025-07-26 16:05:50.738][self$setPropertyValue] Setting property "parsing.expr" to "Formula".
biodb.DEBUG[2025-07-26 16:05:50.738][self$setPropertyValue] Setting property "parsing.expr" to "Molecular Weight".
biodb.DEBUG[2025-07-26 16:05:50.738][self$setPropertyValue] Setting property "parsing.expr" to "CAS".
biodb.DEBUG[2025-07-26 16:05:50.739][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-07-26 16:05:50.740][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-07-26 16:05:50.741][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-07-26 16:05:50.742][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-07-26 16:05:50.743][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-07-26 16:05:50.743][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-07-26 16:05:50.744][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-07-26 16:05:50.745][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-07-26 16:05:50.746][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-07-26 16:05:50.747][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/".
biodb.DEBUG[2025-07-26 16:05:50.747][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/".
biodb.DEBUG[2025-07-26 16:05:50.747][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/download/nci/".
biodb.DEBUG[2025-07-26 16:05:50.747][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/download/nci/NCI-Open_2012-05-01.sdf.gz".
biodb.DEBUG[2025-07-26 16:05:50.748][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-07-26 16:05:50.749][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-07-26 16:05:50.750][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:50.751][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-07-26 16:05:50.756][self$getEntryFields()$define] Define field nci.cactus.id.
biodb.DEBUG[2025-07-26 16:05:50.778][super$initialize] Initialize connector nci.cactus.
biodb.DEBUG[2025-07-26 16:05:50.779][super$initialize] Register connector nci.cactus with the request scheduler
biodb.DEBUG[2025-07-26 16:05:50.783][private$bdb$getRequestScheduler()$re ...] Register connector nci.cactus.
biodb.DEBUG[2025-07-26 16:05:50.812][private$addConnectorRules] Create new rule for URL "cactus.nci.nih.gov" of connector "nci.cactus".
biodb.DEBUG[2025-07-26 16:05:50.816][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-07-26 16:05:50.817][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-07-26 16:05:50.818][rule$addConnector] Connector "nci.cactus" is already listed in rule "cactus.nci.nih.gov".
biodb.DEBUG[2025-07-26 16:05:50.819][rule$addConnector] Connector "nci.cactus" is already listed in rule "cactus.nci.nih.gov".
biodb.DEBUG[2025-07-26 16:05:50.820][rule$addConnector] Connector "nci.cactus" is already listed in rule "cactus.nci.nih.gov".
biodb.DEBUG[2025-07-26 16:05:50.821][biodb$getFactory()$createConn] Creating new connector nci.cactus for database class nci.cactus .
biodb.INFO [2025-07-26 16:05:50.829][biodb::testThat]
biodb.INFO [2025-07-26 16:05:50.830][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-07-26 16:05:50.831][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-07-26 16:05:50.832][biodb::testThat]
biodb.TRACE[2025-07-26 16:05:50.835][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.21-bioc-longtests/meat/biodbNci.Rcheck/biodbNci/testref/entry-nci.cactus-749674-content.sdf".
biodb.DEBUG[2025-07-26 16:05:50.836][biodb$getFactory()$createEntryFromCo ...] Creating NCI CACTUS entries from 1 content(s).
biodb.DEBUG[2025-07-26 16:05:50.839][biodb$getFactory()$createEntryFromCo ...] Parsing 1 NCI CACTUS entries.
biodb.DEBUG[2025-07-26 16:05:50.847][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-07-26 16:05:50.848][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:50.848][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:50.863][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:50.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:50.865][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:50.867][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.TRACE[2025-07-26 16:05:50.886][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:50.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:50.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:50.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:50.892][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:50.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:50.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:50.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:50.917][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-07-26 16:05:50.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-07-26 16:05:50.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:50.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:50.949][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-07-26 16:05:50.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-07-26 16:05:50.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:50.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:50.954][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:50.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:50.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:50.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:50.958][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:50.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:50.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:50.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:50.963][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-07-26 16:05:50.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-07-26 16:05:50.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:50.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:50.966][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-07-26 16:05:50.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-07-26 16:05:50.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:50.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:50.971][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-07-26 16:05:50.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-07-26 16:05:50.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:50.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:50.974][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-07-26 16:05:50.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-07-26 16:05:50.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:50.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:50.979][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:50.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:50.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:50.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:50.983][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:50.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:50.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:50.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:50.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:50.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:50.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:50.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:50.990][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:50.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:50.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:50.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:50.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.009][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.043][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.047][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.051][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-07-26 16:05:51.055][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 749674.
biodb.TRACE[2025-07-26 16:05:51.057][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-07-26 16:05:51.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-07-26 16:05:51.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.061][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-07-26 16:05:51.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-07-26 16:05:51.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.065][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-07-26 16:05:51.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-07-26 16:05:51.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.068][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-07-26 16:05:51.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-07-26 16:05:51.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.085][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.100][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:51.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:51.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.108][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.111][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.115][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.120][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.128][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.136][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:51.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:51.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.140][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:51.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:51.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.144][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:51.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:51.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.165][ef$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.166][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.168][ef$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.168][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.179][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-07-26 16:05:51.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-07-26 16:05:51.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.183][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-07-26 16:05:51.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-07-26 16:05:51.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.187][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-07-26 16:05:51.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-07-26 16:05:51.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.190][ef$get] Asked field names are: formula.
biodb.TRACE[2025-07-26 16:05:51.191][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-07-26 16:05:51.192][ef$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.193][ef$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.194][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-07-26 16:05:51.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-07-26 16:05:51.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.204][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:51.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:51.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.208][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:51.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:51.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.212][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:51.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:51.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.216][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:51.217][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:51.218][ef$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.219][ef$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.220][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:51.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:51.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.230][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-07-26 16:05:51.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-07-26 16:05:51.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.234][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-07-26 16:05:51.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-07-26 16:05:51.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.238][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-07-26 16:05:51.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-07-26 16:05:51.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.242][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-07-26 16:05:51.243][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-07-26 16:05:51.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.244][ef$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.245][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-07-26 16:05:51.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-07-26 16:05:51.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.256][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-07-26 16:05:51.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-07-26 16:05:51.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.259][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-07-26 16:05:51.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-07-26 16:05:51.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.263][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-07-26 16:05:51.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-07-26 16:05:51.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.267][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-07-26 16:05:51.268][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-07-26 16:05:51.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.270][ef$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.274][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-07-26 16:05:51.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-07-26 16:05:51.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.284][ef$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.285][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.287][ef$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.291][ef$get] Asked field names are: formula.
biodb.TRACE[2025-07-26 16:05:51.292][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-07-26 16:05:51.293][ef$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.294][ef$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.297][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-07-26 16:05:51.298][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-07-26 16:05:51.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.300][ef$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.304][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-07-26 16:05:51.305][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-07-26 16:05:51.306][ef$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.307][ef$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.311][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:51.312][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:51.313][ef$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.313][ef$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.329][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.21-bioc-longtests/meat/biodbNci.Rcheck/biodbNci/testref/entry-nci.cactus-750690-content.sdf".
biodb.DEBUG[2025-07-26 16:05:51.361][biodb$getFactory()$createEntryFromCo ...] Creating NCI CACTUS entries from 1 content(s).
biodb.DEBUG[2025-07-26 16:05:51.362][biodb$getFactory()$createEntryFromCo ...] Parsing 1 NCI CACTUS entries.
biodb.DEBUG[2025-07-26 16:05:51.364][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-07-26 16:05:51.365][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:51.366][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:51.369][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:51.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:51.371][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:51.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-07-26 16:05:51.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.408][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-07-26 16:05:51.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-07-26 16:05:51.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.412][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-07-26 16:05:51.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-07-26 16:05:51.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.416][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-07-26 16:05:51.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-07-26 16:05:51.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.420][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-07-26 16:05:51.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-07-26 16:05:51.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.424][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:51.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:51.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.428][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:51.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:51.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.432][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-07-26 16:05:51.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-07-26 16:05:51.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.436][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-07-26 16:05:51.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-07-26 16:05:51.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.440][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-07-26 16:05:51.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-07-26 16:05:51.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.443][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-07-26 16:05:51.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-07-26 16:05:51.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.447][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-07-26 16:05:51.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-07-26 16:05:51.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.451][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-07-26 16:05:51.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-07-26 16:05:51.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.455][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-07-26 16:05:51.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-07-26 16:05:51.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.459][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-07-26 16:05:51.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-07-26 16:05:51.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.463][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-07-26 16:05:51.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-07-26 16:05:51.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.467][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-07-26 16:05:51.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-07-26 16:05:51.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.471][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-07-26 16:05:51.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-07-26 16:05:51.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.475][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:51.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:51.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.479][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:51.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:51.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.487][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:51.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:51.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.491][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.494][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.502][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.509][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-07-26 16:05:51.513][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 750690.
biodb.TRACE[2025-07-26 16:05:51.535][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-07-26 16:05:51.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-07-26 16:05:51.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.539][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-07-26 16:05:51.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-07-26 16:05:51.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.543][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-07-26 16:05:51.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-07-26 16:05:51.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.547][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-07-26 16:05:51.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-07-26 16:05:51.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.552][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.559][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:51.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:51.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.566][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.569][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.582][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.590][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:51.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:51.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.593][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:51.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:51.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.597][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:51.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:51.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.619][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.626][ef$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.627][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.628][ef$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.629][ef$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.640][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-07-26 16:05:51.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-07-26 16:05:51.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.644][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-07-26 16:05:51.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-07-26 16:05:51.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.648][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-07-26 16:05:51.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-07-26 16:05:51.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.652][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-07-26 16:05:51.653][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-07-26 16:05:51.654][ef$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.654][ef$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.655][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-07-26 16:05:51.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-07-26 16:05:51.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.669][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-07-26 16:05:51.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-07-26 16:05:51.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.673][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-07-26 16:05:51.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-07-26 16:05:51.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.677][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-07-26 16:05:51.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-07-26 16:05:51.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.680][ef$get] Asked field names are: name.
biodb.TRACE[2025-07-26 16:05:51.681][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-07-26 16:05:51.682][ef$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.683][ef$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.684][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-07-26 16:05:51.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-07-26 16:05:51.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.694][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-07-26 16:05:51.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-07-26 16:05:51.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.698][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-07-26 16:05:51.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-07-26 16:05:51.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.702][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-07-26 16:05:51.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-07-26 16:05:51.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.706][ef$get] Asked field names are: formula.
biodb.TRACE[2025-07-26 16:05:51.707][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-07-26 16:05:51.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.708][ef$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.709][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-07-26 16:05:51.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-07-26 16:05:51.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.719][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:51.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:51.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.723][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:51.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:51.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.727][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:51.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:51.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.731][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:51.732][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:51.733][ef$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.734][ef$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.735][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:51.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:51.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.745][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-07-26 16:05:51.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-07-26 16:05:51.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.748][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-07-26 16:05:51.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-07-26 16:05:51.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.752][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-07-26 16:05:51.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-07-26 16:05:51.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.756][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-07-26 16:05:51.757][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-07-26 16:05:51.758][ef$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.759][ef$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.760][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-07-26 16:05:51.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-07-26 16:05:51.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.770][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-07-26 16:05:51.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-07-26 16:05:51.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.774][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-07-26 16:05:51.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-07-26 16:05:51.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.777][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-07-26 16:05:51.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-07-26 16:05:51.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.781][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-07-26 16:05:51.782][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-07-26 16:05:51.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.784][ef$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.785][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-07-26 16:05:51.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-07-26 16:05:51.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.799][ef$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.800][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.801][ef$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.802][ef$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.806][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-07-26 16:05:51.807][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-07-26 16:05:51.808][ef$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.808][ef$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.812][ef$get] Asked field names are: formula.
biodb.TRACE[2025-07-26 16:05:51.813][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-07-26 16:05:51.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.815][ef$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.819][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-07-26 16:05:51.820][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-07-26 16:05:51.821][ef$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.822][ef$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.825][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-07-26 16:05:51.826][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-07-26 16:05:51.827][ef$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.828][ef$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.832][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:51.833][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:51.834][ef$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.835][ef$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.839][ef$get] Asked field names are: name.
biodb.TRACE[2025-07-26 16:05:51.840][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-07-26 16:05:51.841][ef$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.841][ef$get] fields variable is a list.
biodb.INFO [2025-07-26 16:05:51.848][biodb::testThat]
biodb.INFO [2025-07-26 16:05:51.849][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-07-26 16:05:51.849][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-07-26 16:05:51.850][biodb::testThat]
biodb.DEBUG[2025-07-26 16:05:51.852][private$loadEntries] Creating entries from ids [2]: "749674, 750690".
biodb.DEBUG[2025-07-26 16:05:51.859][conn$getEntryContent] Get NCI CACTUS entry content(s) for 2 id(s)...
biodb.DEBUG[2025-07-26 16:05:51.863][self$isDownloaded] Database nci.cactus has already been downloaded.
biodb.DEBUG[2025-07-26 16:05:51.864][self$isDownloaded] Database nci.cactus has already been downloaded.
biodb.TRACE[2025-07-26 16:05:51.866][cch$loadFileContent] Trying to load 2 files from cache: [2]: "749674, 750690".
biodb.TRACE[2025-07-26 16:05:51.867][cch$loadFileContent] file.exist = [2]: "TRUE, TRUE".
biodb.TRACE[2025-07-26 16:05:51.869][loadFileContents] Loaded 2 files from cache: [2]: "/home/biocbuild/.cache/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/749674.sdf, /home/biocbuild/.cache/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/750690.sdf".
biodb.DEBUG[2025-07-26 16:05:51.870][conn$getEntryContent] 2 NCI CACTUS entry content(s) loaded from cache.
biodb.DEBUG[2025-07-26 16:05:51.871][self$createEntryFromContent] Creating NCI CACTUS entries from 2 content(s).
biodb.DEBUG[2025-07-26 16:05:51.872][self$createEntryFromContent] Parsing 2 NCI CACTUS entries.
biodb.DEBUG[2025-07-26 16:05:51.874][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-07-26 16:05:51.874][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:51.875][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:51.879][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:51.880][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:51.881][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:51.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-07-26 16:05:51.888][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.892][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.897][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-07-26 16:05:51.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-07-26 16:05:51.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.900][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-07-26 16:05:51.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-07-26 16:05:51.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.904][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:51.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:51.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.908][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:51.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:51.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.913][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-07-26 16:05:51.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-07-26 16:05:51.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.916][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-07-26 16:05:51.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-07-26 16:05:51.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.921][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-07-26 16:05:51.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-07-26 16:05:51.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.924][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-07-26 16:05:51.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-07-26 16:05:51.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.929][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:51.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:51.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.932][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:51.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:51.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.941][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.944][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:51.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:51.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.952][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.955][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-07-26 16:05:51.959][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-07-26 16:05:51.960][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:51.961][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:51.965][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:51.966][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:51.967][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:51.968][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-07-26 16:05:51.976][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.980][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:51.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:51.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.985][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-07-26 16:05:51.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-07-26 16:05:51.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.988][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-07-26 16:05:51.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-07-26 16:05:51.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.993][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-07-26 16:05:51.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-07-26 16:05:51.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:51.996][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-07-26 16:05:51.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-07-26 16:05:51.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:51.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.001][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:52.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:52.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.004][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:52.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-07-26 16:05:52.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.008][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-07-26 16:05:52.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-07-26 16:05:52.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.012][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-07-26 16:05:52.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-07-26 16:05:52.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.016][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-07-26 16:05:52.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-07-26 16:05:52.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.020][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-07-26 16:05:52.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-07-26 16:05:52.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.024][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-07-26 16:05:52.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-07-26 16:05:52.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.027][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-07-26 16:05:52.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-07-26 16:05:52.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.031][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-07-26 16:05:52.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-07-26 16:05:52.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.036][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-07-26 16:05:52.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-07-26 16:05:52.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.040][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-07-26 16:05:52.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-07-26 16:05:52.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.044][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-07-26 16:05:52.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-07-26 16:05:52.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.047][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-07-26 16:05:52.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-07-26 16:05:52.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.052][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:52.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:52.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.055][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:52.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:52.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.059][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:52.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:52.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.063][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:52.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-07-26 16:05:52.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.067][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:52.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:52.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.074][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:52.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:52.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.078][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:52.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:52.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:52.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:52.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.085][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:52.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:52.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:52.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:52.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:52.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:52.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.097][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:52.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:52.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-07-26 16:05:52.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-07-26 16:05:52.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-07-26 16:05:52.104][self$createEntryFromContent] Accession numbers: 749674, 750690.
biodb.TRACE[2025-07-26 16:05:52.105][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-07-26 16:05:52.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-07-26 16:05:52.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.109][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-07-26 16:05:52.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-07-26 16:05:52.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.113][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-07-26 16:05:52.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-07-26 16:05:52.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.120][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-07-26 16:05:52.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-07-26 16:05:52.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.124][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-07-26 16:05:52.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-07-26 16:05:52.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.128][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-07-26 16:05:52.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-07-26 16:05:52.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-07-26 16:05:52.137][biodb::testThat]
biodb.INFO [2025-07-26 16:05:52.138][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-07-26 16:05:52.139][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-07-26 16:05:52.140][biodb::testThat]
biodb.INFO [2025-07-26 16:05:52.145][biodb::testThat]
biodb.INFO [2025-07-26 16:05:52.146][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-07-26 16:05:52.147][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-07-26 16:05:52.147][biodb::testThat]
biodb.WARN [2025-07-26 16:05:52.166][self$searchForEntries] This database is not searchable by field "name".
biodb.WARN [2025-07-26 16:05:52.183][self$searchForEntries] This database is not searchable by field "name".
biodb.INFO [2025-07-26 16:05:52.191][biodb::testThat]
biodb.INFO [2025-07-26 16:05:52.192][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-07-26 16:05:52.192][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-07-26 16:05:52.193][biodb::testThat]
biodb.TRACE[2025-07-26 16:05:52.217][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-07-26 16:05:52.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-07-26 16:05:52.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.221][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-07-26 16:05:52.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-07-26 16:05:52.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.225][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-07-26 16:05:52.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-07-26 16:05:52.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.229][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-07-26 16:05:52.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-07-26 16:05:52.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.262][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-07-26 16:05:52.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-07-26 16:05:52.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.266][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-07-26 16:05:52.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-07-26 16:05:52.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.270][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-07-26 16:05:52.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-07-26 16:05:52.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-07-26 16:05:52.273][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-07-26 16:05:52.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-07-26 16:05:52.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-07-26 16:05:52.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-07-26 16:05:52.281][biodb::testThat]
biodb.INFO [2025-07-26 16:05:52.282][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-07-26 16:05:52.283][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-07-26 16:05:52.284][biodb::testThat]
biodb.INFO [2025-07-26 16:05:52.290][biodb::testThat]
biodb.INFO [2025-07-26 16:05:52.291][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-07-26 16:05:52.292][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-07-26 16:05:52.293][biodb::testThat]
biodb.INFO [2025-07-26 16:05:52.299][biodb::testThat]
biodb.INFO [2025-07-26 16:05:52.300][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-07-26 16:05:52.301][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-07-26 16:05:52.301][biodb::testThat]
biodb.INFO [2025-07-26 16:05:52.306][biodb::testThat]
biodb.INFO [2025-07-26 16:05:52.307][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-07-26 16:05:52.308][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-07-26 16:05:52.309][biodb::testThat]
biodb.INFO [2025-07-26 16:05:52.318][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-07-26 16:05:52.319][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector nci.cactus from the request scheduler
biodb.INFO [2025-07-26 16:05:52.320][self$deleteConn] Connector "nci.cactus" deleted.
biodb.DEBUG[2025-07-26 16:05:52.320][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-07-26 16:05:52.321][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:52.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:52.323][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.325][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.325][FUN] Functions in observer BiodbConfig: [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 [2025-07-26 16:05:52.334][biodb::testContext]
biodb.INFO [2025-07-26 16:05:52.335][biodb::testContext] ********************************************************************************
biodb.INFO [2025-07-26 16:05:52.336][biodb::testContext] Test context - Example long tests
biodb.INFO [2025-07-26 16:05:52.337][biodb::testContext] ********************************************************************************
biodb.INFO [2025-07-26 16:05:52.337][biodb::testContext]
biodb.INFO [2025-07-26 16:05:52.339][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-07-26 16:05:52.341][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.21-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-07-26 16:05:52.344][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-07-26 16:05:52.345][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-07-26 16:05:52.346][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-07-26 16:05:52.347][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.350][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-07-26 16:05:52.351][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-07-26 16:05:52.352][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.354][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-07-26 16:05:52.355][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-07-26 16:05:52.356][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.359][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-07-26 16:05:52.360][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-07-26 16:05:52.361][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-07-26 16:05:52.361][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.364][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-07-26 16:05:52.365][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-07-26 16:05:52.366][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-07-26 16:05:52.367][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.369][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-07-26 16:05:52.370][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-07-26 16:05:52.371][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.374][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-07-26 16:05:52.375][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-07-26 16:05:52.376][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-07-26 16:05:52.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.379][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-07-26 16:05:52.380][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-07-26 16:05:52.381][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.384][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-07-26 16:05:52.385][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-07-26 16:05:52.386][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-07-26 16:05:52.387][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.389][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-07-26 16:05:52.390][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-07-26 16:05:52.391][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-07-26 16:05:52.392][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-07-26 16:05:52.393][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-07-26 16:05:52.394][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-07-26 16:05:52.395][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.397][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-07-26 16:05:52.398][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-07-26 16:05:52.399][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.402][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-07-26 16:05:52.403][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-07-26 16:05:52.404][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.406][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-07-26 16:05:52.407][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-07-26 16:05:52.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.411][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-07-26 16:05:52.412][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-07-26 16:05:52.413][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.415][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-07-26 16:05:52.416][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-07-26 16:05:52.417][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.420][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-07-26 16:05:52.420][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-07-26 16:05:52.425][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-07-26 16:05:52.426][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.428][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-07-26 16:05:52.429][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-07-26 16:05:52.430][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-07-26 16:05:52.431][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.434][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-07-26 16:05:52.435][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-07-26 16:05:52.436][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-07-26 16:05:52.437][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:52.438][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-07-26 16:05:52.439][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:52.440][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-07-26 16:05:52.441][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-07-26 16:05:52.442][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-07-26 16:05:52.443][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-07-26 16:05:52.448][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-07-26 16:05:52.449][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:52.450][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-07-26 16:05:52.451][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-07-26 16:05:52.451][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-07-26 16:05:52.452][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:52.453][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-07-26 16:05:52.453][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-07-26 16:05:52.453][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-07-26 16:05:52.453][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-07-26 16:05:52.453][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-07-26 16:05:52.454][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-07-26 16:05:52.455][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-07-26 16:05:52.456][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-07-26 16:05:52.457][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-07-26 16:05:52.458][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-07-26 16:05:52.459][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-07-26 16:05:52.460][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-07-26 16:05:52.461][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-07-26 16:05:52.462][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-07-26 16:05:52.462][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-07-26 16:05:52.463][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-07-26 16:05:52.464][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-07-26 16:05:52.465][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-07-26 16:05:52.467][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-07-26 16:05:52.468][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-07-26 16:05:52.469][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:52.470][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-07-26 16:05:52.471][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:52.472][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-07-26 16:05:52.473][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-07-26 16:05:52.474][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-07-26 16:05:52.475][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-07-26 16:05:52.476][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-07-26 16:05:52.476][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:52.477][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-07-26 16:05:52.478][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-07-26 16:05:52.479][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-07-26 16:05:52.480][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:52.481][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-07-26 16:05:52.481][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-07-26 16:05:52.481][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-07-26 16:05:52.481][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-07-26 16:05:52.481][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-07-26 16:05:52.482][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-07-26 16:05:52.483][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-07-26 16:05:52.484][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-07-26 16:05:52.485][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-07-26 16:05:52.486][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-07-26 16:05:52.487][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-07-26 16:05:52.488][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-07-26 16:05:52.489][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-07-26 16:05:52.490][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-07-26 16:05:52.490][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-07-26 16:05:52.491][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-07-26 16:05:52.492][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-07-26 16:05:52.493][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-07-26 16:05:52.495][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:52.496][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-07-26 16:05:52.497][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:52.498][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-07-26 16:05:52.499][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:52.500][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-07-26 16:05:52.501][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-07-26 16:05:52.502][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-07-26 16:05:52.503][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-07-26 16:05:52.504][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-07-26 16:05:52.505][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-07-26 16:05:52.505][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-07-26 16:05:52.506][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-07-26 16:05:52.507][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-07-26 16:05:52.508][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:52.509][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-07-26 16:05:52.510][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-07-26 16:05:52.511][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-07-26 16:05:52.512][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-07-26 16:05:52.513][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-07-26 16:05:52.514][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-07-26 16:05:52.515][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-07-26 16:05:52.516][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-07-26 16:05:52.517][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-07-26 16:05:52.517][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-07-26 16:05:52.518][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-07-26 16:05:52.519][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-07-26 16:05:52.520][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-07-26 16:05:52.521][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-07-26 16:05:52.523][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:52.524][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-07-26 16:05:52.525][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:52.526][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-07-26 16:05:52.527][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:52.528][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-07-26 16:05:52.529][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-07-26 16:05:52.530][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-07-26 16:05:52.531][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-07-26 16:05:52.531][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-07-26 16:05:52.532][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-07-26 16:05:52.533][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-07-26 16:05:52.534][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-07-26 16:05:52.535][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-07-26 16:05:52.536][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:52.537][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-07-26 16:05:52.538][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-07-26 16:05:52.539][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-07-26 16:05:52.540][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-07-26 16:05:52.541][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-07-26 16:05:52.542][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-07-26 16:05:52.543][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-07-26 16:05:52.544][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-07-26 16:05:52.544][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-07-26 16:05:52.545][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-07-26 16:05:52.546][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-07-26 16:05:52.547][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-07-26 16:05:52.548][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-07-26 16:05:52.549][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-07-26 16:05:52.550][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.552][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.556][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.558][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.560][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.564][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.565][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.569][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.571][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.577][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.581][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.583][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.585][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.598][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.600][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.602][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.604][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.611][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.615][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.623][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.625][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.628][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-07-26 16:05:52.629][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-07-26 16:05:52.630][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-07-26 16:05:52.632][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-07-26 16:05:52.633][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-07-26 16:05:52.634][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-07-26 16:05:52.636][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-07-26 16:05:52.637][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-07-26 16:05:52.638][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-07-26 16:05:52.640][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-07-26 16:05:52.641][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-07-26 16:05:52.642][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-07-26 16:05:52.644][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-07-26 16:05:52.645][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-07-26 16:05:52.646][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-07-26 16:05:52.648][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-07-26 16:05:52.649][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-07-26 16:05:52.650][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-07-26 16:05:52.652][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-07-26 16:05:52.653][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-07-26 16:05:52.654][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-07-26 16:05:52.656][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-07-26 16:05:52.657][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-07-26 16:05:52.658][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-07-26 16:05:52.659][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-07-26 16:05:52.661][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-07-26 16:05:52.662][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-07-26 16:05:52.663][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-07-26 16:05:52.665][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-07-26 16:05:52.666][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-07-26 16:05:52.667][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-07-26 16:05:52.669][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-07-26 16:05:52.670][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-07-26 16:05:52.671][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-07-26 16:05:52.673][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-07-26 16:05:52.674][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-07-26 16:05:52.675][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-07-26 16:05:52.677][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-07-26 16:05:52.678][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-07-26 16:05:52.679][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-07-26 16:05:52.680][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-07-26 16:05:52.682][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-07-26 16:05:52.683][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-07-26 16:05:52.684][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-07-26 16:05:52.686][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-07-26 16:05:52.687][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-07-26 16:05:52.688][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-07-26 16:05:52.690][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-07-26 16:05:52.691][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-07-26 16:05:52.692][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-07-26 16:05:52.694][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-07-26 16:05:52.695][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-07-26 16:05:52.696][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-07-26 16:05:52.698][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-07-26 16:05:52.703][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-07-26 16:05:52.704][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-07-26 16:05:52.705][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-07-26 16:05:52.706][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-07-26 16:05:52.708][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-07-26 16:05:52.709][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-07-26 16:05:52.710][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-07-26 16:05:52.712][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-07-26 16:05:52.713][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-07-26 16:05:52.714][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-07-26 16:05:52.715][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-07-26 16:05:52.717][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-07-26 16:05:52.718][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-07-26 16:05:52.719][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-07-26 16:05:52.721][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-07-26 16:05:52.722][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-07-26 16:05:52.723][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-07-26 16:05:52.725][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-07-26 16:05:52.726][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-07-26 16:05:52.727][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-07-26 16:05:52.729][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-07-26 16:05:52.730][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-07-26 16:05:52.731][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-07-26 16:05:52.733][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-07-26 16:05:52.734][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-07-26 16:05:52.735][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-07-26 16:05:52.736][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-07-26 16:05:52.738][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-07-26 16:05:52.739][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-07-26 16:05:52.741][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-07-26 16:05:52.742][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-07-26 16:05:52.743][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-07-26 16:05:52.744][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.746][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.747][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:52.749][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:52.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.753][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:52.755][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:52.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.759][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:52.761][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:52.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.765][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:52.767][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:52.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.771][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:52.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:52.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.776][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[2025-07-26 16:05:52.777][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:52.779][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:52.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.783][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:52.785][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:52.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.786][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.788][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.789][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:52.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:52.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.792][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.795][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:52.796][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:52.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.801][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:52.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:52.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.806][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[2025-07-26 16:05:52.807][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:52.808][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:52.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.810][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.813][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:52.814][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:52.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.818][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[2025-07-26 16:05:52.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:52.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:52.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.828][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:52.830][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:52.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.833][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[2025-07-26 16:05:52.834][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:52.836][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:52.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.837][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.839][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.840][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:52.842][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:52.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.843][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.845][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[2025-07-26 16:05:52.846][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-07-26 16:05:52.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:52.847][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:52.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.849][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-07-26 16:05:52.853][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.21-bioc-longtests/meat/biodbNci.Rcheck/biodbNci/definitions.yml".
biodb.DEBUG[2025-07-26 16:05:52.854][self$getDbsInfo()$define] Define connector nci.cactus.
biodb.DEBUG[2025-07-26 16:05:52.856][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-07-26 16:05:52.856][self$setPropertyValue] Setting property "description" to "National Cancer Institute (USA) CACTUS Database.".
biodb.DEBUG[2025-07-26 16:05:52.857][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:52.858][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-07-26 16:05:52.859][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-07-26 16:05:52.860][self$setPropertyValue] Setting property "dwnld.ext" to "gz".
biodb.DEBUG[2025-07-26 16:05:52.861][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:52.862][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-07-26 16:05:52.863][self$setPropertyValue] Setting property "entry.content.type" to "sdf".
biodb.DEBUG[2025-07-26 16:05:52.864][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-07-26 16:05:52.865][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:52.866][self$setPropertyValue] Setting property "name" to "NCI CACTUS".
biodb.DEBUG[2025-07-26 16:05:52.867][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-07-26 16:05:52.868][self$setPropertyValue] Setting property "parsing.expr" to "NSC".
biodb.DEBUG[2025-07-26 16:05:52.868][self$setPropertyValue] Setting property "parsing.expr" to "DTP names".
biodb.DEBUG[2025-07-26 16:05:52.868][self$setPropertyValue] Setting property "parsing.expr" to "Standard InChI".
biodb.DEBUG[2025-07-26 16:05:52.868][self$setPropertyValue] Setting property "parsing.expr" to "c("Standard InChIKey", "^InChIKey=(.*)$")".
biodb.DEBUG[2025-07-26 16:05:52.868][self$setPropertyValue] Setting property "parsing.expr" to "Formula".
biodb.DEBUG[2025-07-26 16:05:52.868][self$setPropertyValue] Setting property "parsing.expr" to "Molecular Weight".
biodb.DEBUG[2025-07-26 16:05:52.868][self$setPropertyValue] Setting property "parsing.expr" to "CAS".
biodb.DEBUG[2025-07-26 16:05:52.869][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-07-26 16:05:52.870][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-07-26 16:05:52.871][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-07-26 16:05:52.872][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-07-26 16:05:52.873][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-07-26 16:05:52.874][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-07-26 16:05:52.874][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-07-26 16:05:52.875][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-07-26 16:05:52.876][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-07-26 16:05:52.877][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/".
biodb.DEBUG[2025-07-26 16:05:52.877][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/".
biodb.DEBUG[2025-07-26 16:05:52.877][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/download/nci/".
biodb.DEBUG[2025-07-26 16:05:52.877][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/download/nci/NCI-Open_2012-05-01.sdf.gz".
biodb.DEBUG[2025-07-26 16:05:52.878][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-07-26 16:05:52.879][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-07-26 16:05:52.880][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-07-26 16:05:52.881][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-07-26 16:05:52.882][self$getEntryFields()$define] Define field nci.cactus.id.
biodb.DEBUG[2025-07-26 16:05:52.885][super$initialize] Initialize connector nci.cactus.
biodb.DEBUG[2025-07-26 16:05:52.886][super$initialize] Register connector nci.cactus with the request scheduler
biodb.DEBUG[2025-07-26 16:05:52.887][private$bdb$getRequestScheduler()$re ...] Register connector nci.cactus.
biodb.DEBUG[2025-07-26 16:05:52.888][private$addConnectorRules] Create new rule for URL "cactus.nci.nih.gov" of connector "nci.cactus".
biodb.DEBUG[2025-07-26 16:05:52.889][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-07-26 16:05:52.890][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-07-26 16:05:52.892][rule$addConnector] Connector "nci.cactus" is already listed in rule "cactus.nci.nih.gov".
biodb.DEBUG[2025-07-26 16:05:52.893][rule$addConnector] Connector "nci.cactus" is already listed in rule "cactus.nci.nih.gov".
biodb.DEBUG[2025-07-26 16:05:52.894][rule$addConnector] Connector "nci.cactus" is already listed in rule "cactus.nci.nih.gov".
biodb.DEBUG[2025-07-26 16:05:52.895][biodb$getFactory()$createConn] Creating new connector nci.cactus for database class nci.cactus .
biodb.INFO [2025-07-26 16:05:52.896][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-07-26 16:05:52.897][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector nci.cactus from the request scheduler
biodb.INFO [2025-07-26 16:05:52.898][self$deleteConn] Connector "nci.cactus" deleted.
biodb.DEBUG[2025-07-26 16:05:52.899][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-07-26 16:05:52.899][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-07-26 16:05:52.900][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-07-26 16:05:52.901][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-07-26 16:05:52.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-07-26 16:05:52.903][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-07-26 16:05:52.904][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 92 ]
> 
> proc.time()
   user  system elapsed 
  4.215   0.235   4.435

'R CMD check' output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbNci_1.12.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.21-bioc-longtests/meat/biodbNci.Rcheck’
* using R version 4.5.1 (2025-06-13)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
    GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.2 LTS
* 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 ‘1.12.0’
* 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: ‘g++ (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0’
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... 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
  ‘/home/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 ‘1.12.0’
** using staged installation
** libs
using C++ compiler: ‘g++ (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0’
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.21-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.21-bioc/R/site-library/testthat/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.21-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.21-bioc/R/site-library/testthat/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c extractEntries.cpp -o extractEntries.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.21-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.21-bioc/R/site-library/testthat/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c test-100-example.cpp -o test-100-example.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.21-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.21-bioc/R/site-library/testthat/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c test-runner.cpp -o test-runner.o
g++ -std=gnu++17 -shared -L/home/biocbuild/bbs-3.21-bioc/R/lib -L/usr/local/lib -o biodbNci.so RcppExports.o extractEntries.o test-100-example.o test-runner.o -L/home/biocbuild/bbs-3.21-bioc/R/lib -lR
installing to /home/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)