Back to Long Tests report for BioC 3.20

This page was generated on 2024-09-21 23:55 -0400 (Sat, 21 Sep 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 22.04.3 LTS)x86_644.4.1 (2024-06-14) -- "Race for Your Life" 4438
palomino8Windows Server 2022 Datacenterx644.4.1 (2024-06-14 ucrt) -- "Race for Your Life" 4451
lconwaymacOS 12.7.1 Montereyx86_644.4.1 (2024-06-14) -- "Race for Your Life" 4484
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 11/32HostnameOS / ArchCHECK
biodbNci 1.9.0  (landing page)
Pierrick Roger
Snapshot Date: 2024-09-21 09:55 -0400 (Sat, 21 Sep 2024)
git_url: https://git.bioconductor.org/packages/biodbNci
git_branch: devel
git_last_commit: 12acfea
git_last_commit_date: 2024-04-30 11:41:04 -0400 (Tue, 30 Apr 2024)
nebbiolo2Linux (Ubuntu 22.04.3 LTS) / x86_64  OK  
palomino8Windows Server 2022 Datacenter / x64  OK  
lconwaymacOS 12.7.1 Monterey / x86_64  OK  

CHECK results for biodbNci on palomino8

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: 1.9.0
Command: F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbNci_1.9.0.tar.gz
StartedAt: 2024-09-21 16:06:06 -0400 (Sat, 21 Sep 2024)
EndedAt: 2024-09-21 16:07:32 -0400 (Sat, 21 Sep 2024)
EllapsedTime: 86.4 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbNci.Rcheck
Warnings: 0

Tests output

biodbNci.Rcheck/tests/testthat.Rout


R version 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64

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Type 'license()' or 'licence()' for distribution details.

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Type 'contributors()' for more information and
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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 [2024-09-21 16:07:29.014][biodb::testContext]
biodb.INFO [2024-09-21 16:07:29.017][biodb::testContext] ********************************************************************************
biodb.INFO [2024-09-21 16:07:29.018][biodb::testContext] Test context - Generic long tests
biodb.INFO [2024-09-21 16:07:29.019][biodb::testContext] ********************************************************************************
biodb.INFO [2024-09-21 16:07:29.020][biodb::testContext]
biodb.INFO [2024-09-21 16:07:29.027][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-09-21 16:07:29.029][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2024-09-21 16:07:29.036][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-09-21 16:07:29.037][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-09-21 16:07:29.039][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-09-21 16:07:29.040][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.043][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-09-21 16:07:29.059][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-09-21 16:07:29.060][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.063][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-09-21 16:07:29.064][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-09-21 16:07:29.065][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.069][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-09-21 16:07:29.070][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-09-21 16:07:29.071][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-09-21 16:07:29.072][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.075][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-09-21 16:07:29.077][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-09-21 16:07:29.078][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-09-21 16:07:29.079][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.081][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.082][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-09-21 16:07:29.083][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-09-21 16:07:29.084][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.088][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-09-21 16:07:29.089][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-09-21 16:07:29.090][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-09-21 16:07:29.091][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.093][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.094][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-09-21 16:07:29.095][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-09-21 16:07:29.097][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.100][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-09-21 16:07:29.101][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-09-21 16:07:29.102][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-09-21 16:07:29.103][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.106][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-09-21 16:07:29.108][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-09-21 16:07:29.109][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-09-21 16:07:29.110][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-09-21 16:07:29.111][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-09-21 16:07:29.112][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-09-21 16:07:29.113][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.117][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-09-21 16:07:29.118][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-09-21 16:07:29.119][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.122][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-09-21 16:07:29.123][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-09-21 16:07:29.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.128][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-09-21 16:07:29.129][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-09-21 16:07:29.130][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.133][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-09-21 16:07:29.135][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-09-21 16:07:29.136][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.138][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.139][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-09-21 16:07:29.140][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-09-21 16:07:29.141][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.144][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-09-21 16:07:29.146][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-09-21 16:07:29.149][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-09-21 16:07:29.150][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.153][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-09-21 16:07:29.155][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-09-21 16:07:29.156][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-09-21 16:07:29.157][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.162][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-09-21 16:07:29.197][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-09-21 16:07:29.210][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-09-21 16:07:29.212][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:29.213][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-21 16:07:29.214][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:29.215][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-09-21 16:07:29.217][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-09-21 16:07:29.218][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-21 16:07:29.219][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-09-21 16:07:29.220][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-21 16:07:29.221][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:29.223][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-09-21 16:07:29.224][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-21 16:07:29.225][self$setPropertyValue]
biodb.DEBUG[2024-09-21 16:07:29.226][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:29.227][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-09-21 16:07:29.227][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-09-21 16:07:29.227][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-09-21 16:07:29.227][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-09-21 16:07:29.227][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-09-21 16:07:29.229][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-09-21 16:07:29.230][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-21 16:07:29.231][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-21 16:07:29.232][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-21 16:07:29.233][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-21 16:07:29.234][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-21 16:07:29.235][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-21 16:07:29.237][self$setPropertyValue]
biodb.DEBUG[2024-09-21 16:07:29.238][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-21 16:07:29.239][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-21 16:07:29.240][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-09-21 16:07:29.241][self$setPropertyValue]
biodb.DEBUG[2024-09-21 16:07:29.243][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-09-21 16:07:29.244][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-09-21 16:07:29.246][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-09-21 16:07:29.247][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:29.248][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-21 16:07:29.249][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:29.250][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-09-21 16:07:29.252][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-09-21 16:07:29.253][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-21 16:07:29.254][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-09-21 16:07:29.255][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-21 16:07:29.256][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:29.258][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-09-21 16:07:29.259][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-21 16:07:29.260][self$setPropertyValue]
biodb.DEBUG[2024-09-21 16:07:29.261][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:29.262][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-09-21 16:07:29.262][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-09-21 16:07:29.262][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-09-21 16:07:29.262][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-09-21 16:07:29.262][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-09-21 16:07:29.264][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-09-21 16:07:29.265][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-21 16:07:29.266][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-21 16:07:29.267][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-21 16:07:29.268][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-21 16:07:29.269][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-21 16:07:29.270][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-21 16:07:29.272][self$setPropertyValue]
biodb.DEBUG[2024-09-21 16:07:29.273][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-21 16:07:29.274][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-21 16:07:29.275][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-09-21 16:07:29.276][self$setPropertyValue]
biodb.DEBUG[2024-09-21 16:07:29.277][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-09-21 16:07:29.279][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:29.281][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-09-21 16:07:29.282][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:29.283][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-21 16:07:29.284][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:29.285][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-09-21 16:07:29.286][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-09-21 16:07:29.288][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-21 16:07:29.289][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-09-21 16:07:29.290][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-21 16:07:29.291][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-09-21 16:07:29.292][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-09-21 16:07:29.294][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-21 16:07:29.295][self$setPropertyValue]
biodb.DEBUG[2024-09-21 16:07:29.296][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:29.297][self$setPropertyValue]
biodb.DEBUG[2024-09-21 16:07:29.298][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-09-21 16:07:29.299][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-21 16:07:29.301][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-21 16:07:29.302][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-21 16:07:29.303][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-21 16:07:29.304][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-21 16:07:29.305][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-21 16:07:29.306][self$setPropertyValue]
biodb.DEBUG[2024-09-21 16:07:29.307][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-21 16:07:29.308][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-21 16:07:29.310][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-09-21 16:07:29.311][self$setPropertyValue]
biodb.DEBUG[2024-09-21 16:07:29.312][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-09-21 16:07:29.314][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:29.315][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-09-21 16:07:29.317][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:29.318][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-21 16:07:29.319][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:29.320][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-09-21 16:07:29.321][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-09-21 16:07:29.322][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-21 16:07:29.324][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-09-21 16:07:29.325][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-21 16:07:29.326][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-09-21 16:07:29.327][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-09-21 16:07:29.328][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-21 16:07:29.330][self$setPropertyValue]
biodb.DEBUG[2024-09-21 16:07:29.331][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:29.332][self$setPropertyValue]
biodb.DEBUG[2024-09-21 16:07:29.333][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-09-21 16:07:29.334][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-21 16:07:29.335][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-21 16:07:29.336][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-21 16:07:29.338][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-21 16:07:29.339][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-21 16:07:29.340][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-21 16:07:29.341][self$setPropertyValue]
biodb.DEBUG[2024-09-21 16:07:29.342][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-21 16:07:29.343][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-21 16:07:29.344][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-09-21 16:07:29.346][self$setPropertyValue]
biodb.DEBUG[2024-09-21 16:07:29.349][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-09-21 16:07:29.350][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.351][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.352][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:29.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:29.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.358][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:29.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:29.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.363][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:29.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:29.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.368][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:29.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:29.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.373][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[2024-09-21 16:07:29.374][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:29.376][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:29.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.378][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[2024-09-21 16:07:29.379][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:29.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:29.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.388][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[2024-09-21 16:07:29.390][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:29.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:29.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.395][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:29.397][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:29.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.399][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[2024-09-21 16:07:29.400][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:29.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:29.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.404][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[2024-09-21 16:07:29.406][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:29.408][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:29.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.410][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[2024-09-21 16:07:29.411][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:29.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:29.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.416][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:29.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:29.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.422][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:29.424][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:29.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.427][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:29.429][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:29.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:29.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:29.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.437][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[2024-09-21 16:07:29.438][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:29.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:29.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.442][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.443][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:29.445][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:29.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.449][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-09-21 16:07:29.453][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-09-21 16:07:29.455][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-09-21 16:07:29.456][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-09-21 16:07:29.458][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-09-21 16:07:29.460][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-09-21 16:07:29.461][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-09-21 16:07:29.463][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-09-21 16:07:29.464][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-09-21 16:07:29.466][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-09-21 16:07:29.468][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-09-21 16:07:29.469][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-09-21 16:07:29.471][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-09-21 16:07:29.472][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-09-21 16:07:29.474][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-09-21 16:07:29.475][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-09-21 16:07:29.477][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-09-21 16:07:29.478][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-09-21 16:07:29.480][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-09-21 16:07:29.481][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-09-21 16:07:29.483][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-09-21 16:07:29.485][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-09-21 16:07:29.486][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-09-21 16:07:29.488][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-09-21 16:07:29.489][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-09-21 16:07:29.491][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-09-21 16:07:29.492][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-09-21 16:07:29.494][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-09-21 16:07:29.496][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-09-21 16:07:29.497][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-09-21 16:07:29.499][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-09-21 16:07:29.500][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-09-21 16:07:29.502][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-09-21 16:07:29.503][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-09-21 16:07:29.505][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-09-21 16:07:29.506][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-09-21 16:07:29.508][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-09-21 16:07:29.510][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-09-21 16:07:29.511][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-09-21 16:07:29.513][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-09-21 16:07:29.514][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-09-21 16:07:29.516][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-09-21 16:07:29.517][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-09-21 16:07:29.519][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-09-21 16:07:29.521][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-09-21 16:07:29.522][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-09-21 16:07:29.524][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-09-21 16:07:29.525][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-09-21 16:07:29.527][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-09-21 16:07:29.528][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-09-21 16:07:29.530][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-09-21 16:07:29.532][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-09-21 16:07:29.533][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-09-21 16:07:29.535][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-09-21 16:07:29.536][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-09-21 16:07:29.538][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-09-21 16:07:29.539][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-09-21 16:07:29.541][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-09-21 16:07:29.542][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-09-21 16:07:29.544][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-09-21 16:07:29.546][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-09-21 16:07:29.547][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-09-21 16:07:29.549][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-09-21 16:07:29.550][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-09-21 16:07:29.552][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-09-21 16:07:29.553][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-09-21 16:07:29.555][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-09-21 16:07:29.557][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-09-21 16:07:29.558][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-09-21 16:07:29.560][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-09-21 16:07:29.561][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-09-21 16:07:29.563][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-09-21 16:07:29.564][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-09-21 16:07:29.566][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-09-21 16:07:29.567][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-09-21 16:07:29.569][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-09-21 16:07:29.571][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-09-21 16:07:29.572][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-09-21 16:07:29.574][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-09-21 16:07:29.575][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-09-21 16:07:29.577][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-09-21 16:07:29.578][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-09-21 16:07:29.580][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-09-21 16:07:29.622][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-09-21 16:07:29.625][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-09-21 16:07:29.628][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-09-21 16:07:29.629][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:29.630][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:29.631][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.632][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.636][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:29.639][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:29.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:29.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:29.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.644][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:29.646][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:29.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:29.648][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:29.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.651][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:29.654][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:29.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:29.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:29.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.659][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:29.661][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:29.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:29.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:29.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.666][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:29.668][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:29.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:29.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:29.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.674][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:29.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:29.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:29.678][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:29.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:29.683][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:29.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:29.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:29.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.689][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:29.691][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:29.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:29.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:29.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.695][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[2024-09-21 16:07:29.696][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:29.698][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:29.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:29.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:29.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.702][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.704][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:29.706][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:29.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:29.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:29.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.711][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:29.713][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:29.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:29.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:29.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.718][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:29.721][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:29.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:29.723][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:29.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.726][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:29.728][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:29.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:29.730][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:29.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.733][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:29.735][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:29.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:29.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:29.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.741][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:29.743][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:29.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:29.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:29.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:29.750][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:29.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:29.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:29.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.755][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:29.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:29.758][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:29.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:29.760][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:29.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:29.765][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc-longtests/meat/biodbNci.Rcheck/biodbNci/definitions.yml".
biodb.DEBUG[2024-09-21 16:07:29.774][self$getDbsInfo()$define] Define connector nci.cactus.
biodb.DEBUG[2024-09-21 16:07:29.776][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-09-21 16:07:29.777][self$setPropertyValue] Setting property "description" to "National Cancer Institute (USA) CACTUS Database.".
biodb.DEBUG[2024-09-21 16:07:29.778][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:29.779][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-21 16:07:29.781][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-09-21 16:07:29.782][self$setPropertyValue] Setting property "dwnld.ext" to "gz".
biodb.DEBUG[2024-09-21 16:07:29.783][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:29.784][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-21 16:07:29.785][self$setPropertyValue] Setting property "entry.content.type" to "sdf".
biodb.DEBUG[2024-09-21 16:07:29.787][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-21 16:07:29.788][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:29.789][self$setPropertyValue] Setting property "name" to "NCI CACTUS".
biodb.DEBUG[2024-09-21 16:07:29.790][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-21 16:07:29.791][self$setPropertyValue] Setting property "parsing.expr" to "NSC".
biodb.DEBUG[2024-09-21 16:07:29.791][self$setPropertyValue] Setting property "parsing.expr" to "DTP names".
biodb.DEBUG[2024-09-21 16:07:29.791][self$setPropertyValue] Setting property "parsing.expr" to "Standard InChI".
biodb.DEBUG[2024-09-21 16:07:29.791][self$setPropertyValue] Setting property "parsing.expr" to "c("Standard InChIKey", "^InChIKey=(.*)$")".
biodb.DEBUG[2024-09-21 16:07:29.791][self$setPropertyValue] Setting property "parsing.expr" to "Formula".
biodb.DEBUG[2024-09-21 16:07:29.791][self$setPropertyValue] Setting property "parsing.expr" to "Molecular Weight".
biodb.DEBUG[2024-09-21 16:07:29.791][self$setPropertyValue] Setting property "parsing.expr" to "CAS".
biodb.DEBUG[2024-09-21 16:07:29.793][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-09-21 16:07:29.794][self$setPropertyValue]
biodb.DEBUG[2024-09-21 16:07:29.795][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-09-21 16:07:29.796][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-21 16:07:29.797][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-21 16:07:29.798][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-21 16:07:29.799][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-21 16:07:29.800][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-21 16:07:29.802][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-21 16:07:29.803][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/".
biodb.DEBUG[2024-09-21 16:07:29.803][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/".
biodb.DEBUG[2024-09-21 16:07:29.803][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/download/nci/".
biodb.DEBUG[2024-09-21 16:07:29.803][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/download/nci/NCI-Open_2012-05-01.sdf.gz".
biodb.DEBUG[2024-09-21 16:07:29.804][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-21 16:07:29.805][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-21 16:07:29.806][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:29.807][self$setPropertyValue]
biodb.DEBUG[2024-09-21 16:07:29.813][self$getEntryFields()$define] Define field nci.cactus.id.
biodb.DEBUG[2024-09-21 16:07:29.859][super$initialize] Initialize connector nci.cactus.
biodb.DEBUG[2024-09-21 16:07:29.861][super$initialize] Register connector nci.cactus with the request scheduler
biodb.DEBUG[2024-09-21 16:07:29.864][private$bdb$getRequestScheduler()$re ...] Register connector nci.cactus.
biodb.DEBUG[2024-09-21 16:07:29.868][private$addConnectorRules] Create new rule for URL "cactus.nci.nih.gov" of connector "nci.cactus".
biodb.DEBUG[2024-09-21 16:07:29.872][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-09-21 16:07:29.873][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-09-21 16:07:29.874][rule$addConnector] Connector "nci.cactus" is already listed in rule "cactus.nci.nih.gov".
biodb.DEBUG[2024-09-21 16:07:29.876][rule$addConnector] Connector "nci.cactus" is already listed in rule "cactus.nci.nih.gov".
biodb.DEBUG[2024-09-21 16:07:29.877][rule$addConnector] Connector "nci.cactus" is already listed in rule "cactus.nci.nih.gov".
biodb.DEBUG[2024-09-21 16:07:29.879][biodb$getFactory()$createConn] Creating new connector nci.cactus for database class nci.cactus .
biodb.INFO [2024-09-21 16:07:29.888][biodb::testThat]
biodb.INFO [2024-09-21 16:07:29.889][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2024-09-21 16:07:29.890][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-21 16:07:29.891][biodb::testThat]
biodb.TRACE[2024-09-21 16:07:29.896][loadFileContents] Loaded 1 files from cache: [1]: "F:/biocbuild/bbs-3.20-bioc-longtests/meat/biodbNci.Rcheck/biodbNci/testref/entry-nci.cactus-749674-content.sdf".
biodb.DEBUG[2024-09-21 16:07:29.898][biodb$getFactory()$createEntryFromCo ...] Creating NCI CACTUS entries from 1 content(s).
biodb.DEBUG[2024-09-21 16:07:29.901][biodb$getFactory()$createEntryFromCo ...] Parsing 1 NCI CACTUS entries.
biodb.DEBUG[2024-09-21 16:07:29.907][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-09-21 16:07:29.908][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:29.909][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:29.925][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:29.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:29.927][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:29.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-09-21 16:07:29.943][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:29.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:29.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:29.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:29.947][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:29.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:29.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:29.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:29.963][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-21 16:07:29.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-21 16:07:29.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:29.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:29.989][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-21 16:07:29.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-21 16:07:29.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:29.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:29.994][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:29.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:29.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:29.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:29.999][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:30.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:30.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.005][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-21 16:07:30.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-21 16:07:30.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.010][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-21 16:07:30.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-21 16:07:30.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.015][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-21 16:07:30.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-21 16:07:30.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.020][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-21 16:07:30.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-21 16:07:30.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.026][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:30.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:30.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.030][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:30.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:30.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.050][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:30.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:30.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.097][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.102][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.107][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-21 16:07:30.111][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 749674.
biodb.TRACE[2024-09-21 16:07:30.114][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-09-21 16:07:30.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-09-21 16:07:30.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.119][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-09-21 16:07:30.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-09-21 16:07:30.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.124][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-09-21 16:07:30.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-09-21 16:07:30.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.129][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-09-21 16:07:30.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-09-21 16:07:30.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.154][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.171][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:30.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:30.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.182][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.187][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.192][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.213][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.218][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:30.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:30.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.223][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:30.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:30.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.228][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:30.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:30.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.242][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.247][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.251][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.256][ef$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.257][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.258][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.260][ef$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.275][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-21 16:07:30.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-21 16:07:30.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.280][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-21 16:07:30.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-21 16:07:30.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.285][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-21 16:07:30.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-21 16:07:30.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.290][ef$get] Asked field names are: formula.
biodb.TRACE[2024-09-21 16:07:30.291][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-21 16:07:30.292][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.293][ef$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.294][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-21 16:07:30.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-21 16:07:30.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.309][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:30.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:30.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.314][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:30.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:30.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.318][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:30.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:30.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.323][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:30.324][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:30.326][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.327][ef$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.328][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:30.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:30.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.342][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-21 16:07:30.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-21 16:07:30.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.347][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-21 16:07:30.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-21 16:07:30.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.352][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-21 16:07:30.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-21 16:07:30.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.356][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-09-21 16:07:30.358][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-21 16:07:30.359][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.360][ef$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.361][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-21 16:07:30.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-21 16:07:30.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.375][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-21 16:07:30.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-21 16:07:30.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.380][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-21 16:07:30.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-21 16:07:30.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.390][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-21 16:07:30.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-21 16:07:30.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.395][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-21 16:07:30.396][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-21 16:07:30.397][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.398][ef$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.399][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-21 16:07:30.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-21 16:07:30.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.414][ef$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.415][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.416][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.417][ef$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.424][ef$get] Asked field names are: formula.
biodb.TRACE[2024-09-21 16:07:30.425][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-21 16:07:30.426][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.427][ef$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.433][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-09-21 16:07:30.435][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-21 16:07:30.436][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.437][ef$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.443][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-21 16:07:30.445][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-21 16:07:30.446][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.447][ef$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.454][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:30.456][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:30.457][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.458][ef$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.476][loadFileContents] Loaded 1 files from cache: [1]: "F:/biocbuild/bbs-3.20-bioc-longtests/meat/biodbNci.Rcheck/biodbNci/testref/entry-nci.cactus-750690-content.sdf".
biodb.DEBUG[2024-09-21 16:07:30.505][biodb$getFactory()$createEntryFromCo ...] Creating NCI CACTUS entries from 1 content(s).
biodb.DEBUG[2024-09-21 16:07:30.507][biodb$getFactory()$createEntryFromCo ...] Parsing 1 NCI CACTUS entries.
biodb.DEBUG[2024-09-21 16:07:30.508][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-09-21 16:07:30.509][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:30.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:30.517][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:30.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:30.520][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:30.521][FUN] Functions in observer BiodbConfig: [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[2024-09-21 16:07:30.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.540][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.560][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-21 16:07:30.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-21 16:07:30.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.565][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-21 16:07:30.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-21 16:07:30.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.571][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-21 16:07:30.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-21 16:07:30.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.575][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-21 16:07:30.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-21 16:07:30.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.581][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:30.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:30.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.586][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:30.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:30.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.591][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-21 16:07:30.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-21 16:07:30.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.596][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-21 16:07:30.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-21 16:07:30.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.601][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-21 16:07:30.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-21 16:07:30.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.605][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-21 16:07:30.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-21 16:07:30.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.610][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-21 16:07:30.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-21 16:07:30.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.615][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-21 16:07:30.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-21 16:07:30.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.620][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-21 16:07:30.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-21 16:07:30.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.625][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-21 16:07:30.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-21 16:07:30.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.630][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-21 16:07:30.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-21 16:07:30.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.635][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-21 16:07:30.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-21 16:07:30.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.640][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-21 16:07:30.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-21 16:07:30.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.646][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:30.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:30.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.650][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:30.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:30.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.660][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:30.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:30.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.665][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.670][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.674][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.684][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-21 16:07:30.693][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 750690.
biodb.TRACE[2024-09-21 16:07:30.716][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-09-21 16:07:30.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-09-21 16:07:30.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.721][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-09-21 16:07:30.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-09-21 16:07:30.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.726][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-09-21 16:07:30.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-09-21 16:07:30.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.731][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-09-21 16:07:30.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-09-21 16:07:30.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.737][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.747][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:30.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:30.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.762][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.767][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.778][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.783][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.788][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:30.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:30.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.792][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:30.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:30.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.797][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:30.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:30.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.824][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.828][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.833][ef$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.834][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.836][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.837][ef$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:30.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:30.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.852][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-21 16:07:30.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-21 16:07:30.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.862][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-21 16:07:30.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-21 16:07:30.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.866][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-21 16:07:30.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-21 16:07:30.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.871][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-21 16:07:30.872][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-21 16:07:30.874][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.875][ef$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.876][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-21 16:07:30.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-21 16:07:30.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.890][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-21 16:07:30.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-21 16:07:30.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.895][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-21 16:07:30.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-21 16:07:30.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.900][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-21 16:07:30.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-21 16:07:30.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.905][ef$get] Asked field names are: name.
biodb.TRACE[2024-09-21 16:07:30.906][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-09-21 16:07:30.907][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.908][ef$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.910][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-21 16:07:30.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-21 16:07:30.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.924][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-21 16:07:30.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-21 16:07:30.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.929][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-21 16:07:30.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-21 16:07:30.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.933][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-21 16:07:30.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-21 16:07:30.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.938][ef$get] Asked field names are: formula.
biodb.TRACE[2024-09-21 16:07:30.939][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-21 16:07:30.941][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.942][ef$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.943][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-21 16:07:30.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-21 16:07:30.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.957][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:30.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:30.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.962][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:30.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:30.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.967][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:30.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:30.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.972][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:30.973][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:30.974][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.975][ef$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.976][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:30.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:30.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.991][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-21 16:07:30.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-21 16:07:30.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:30.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:30.996][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-21 16:07:30.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-21 16:07:30.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.003][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-21 16:07:31.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-21 16:07:31.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.008][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-09-21 16:07:31.009][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-21 16:07:31.011][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.012][ef$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.013][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-21 16:07:31.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-21 16:07:31.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.027][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-21 16:07:31.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-21 16:07:31.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.032][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-21 16:07:31.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-21 16:07:31.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.037][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-21 16:07:31.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-21 16:07:31.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.047][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-21 16:07:31.048][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-21 16:07:31.049][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.050][ef$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.051][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-21 16:07:31.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-21 16:07:31.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.066][ef$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:31.067][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:31.068][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.070][ef$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.076][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-21 16:07:31.078][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-21 16:07:31.079][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.080][ef$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.086][ef$get] Asked field names are: formula.
biodb.TRACE[2024-09-21 16:07:31.088][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-21 16:07:31.089][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.090][ef$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.097][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-09-21 16:07:31.098][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-21 16:07:31.099][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.100][ef$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.107][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-21 16:07:31.108][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-21 16:07:31.109][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.110][ef$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.117][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:31.118][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:31.119][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.121][ef$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.127][ef$get] Asked field names are: name.
biodb.TRACE[2024-09-21 16:07:31.129][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-09-21 16:07:31.130][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.131][ef$get] fields variable is a list.
biodb.INFO [2024-09-21 16:07:31.142][biodb::testThat]
biodb.INFO [2024-09-21 16:07:31.144][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-09-21 16:07:31.145][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-21 16:07:31.146][biodb::testThat]
biodb.DEBUG[2024-09-21 16:07:31.148][private$loadEntries] Creating entries from ids [2]: "749674, 750690".
biodb.DEBUG[2024-09-21 16:07:31.154][conn$getEntryContent] Get NCI CACTUS entry content(s) for 2 id(s)...
biodb.DEBUG[2024-09-21 16:07:31.161][self$isDownloaded] Database nci.cactus has already been downloaded.
biodb.DEBUG[2024-09-21 16:07:31.162][self$isDownloaded] Database nci.cactus has already been downloaded.
biodb.TRACE[2024-09-21 16:07:31.165][cch$loadFileContent] Trying to load 2 files from cache: [2]: "749674, 750690".
biodb.TRACE[2024-09-21 16:07:31.167][cch$loadFileContent] file.exist = [2]: "TRUE, TRUE".
biodb.TRACE[2024-09-21 16:07:31.188][loadFileContents] Loaded 2 files from cache: [2]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/749674.sdf, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/750690.sdf".
biodb.DEBUG[2024-09-21 16:07:31.190][conn$getEntryContent] 2 NCI CACTUS entry content(s) loaded from cache.
biodb.DEBUG[2024-09-21 16:07:31.191][self$createEntryFromContent] Creating NCI CACTUS entries from 2 content(s).
biodb.DEBUG[2024-09-21 16:07:31.193][self$createEntryFromContent] Parsing 2 NCI CACTUS entries.
biodb.DEBUG[2024-09-21 16:07:31.194][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-09-21 16:07:31.195][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:31.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:31.203][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:31.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:31.205][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:31.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-09-21 16:07:31.213][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:31.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:31.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.218][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:31.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:31.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.224][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-21 16:07:31.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-21 16:07:31.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.229][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-21 16:07:31.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-21 16:07:31.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.234][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:31.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:31.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.238][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:31.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:31.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.244][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-21 16:07:31.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-21 16:07:31.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.249][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-21 16:07:31.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-21 16:07:31.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.259][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-21 16:07:31.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-21 16:07:31.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.264][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-21 16:07:31.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-21 16:07:31.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.270][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:31.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:31.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.274][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:31.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:31.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.279][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:31.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:31.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.284][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:31.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:31.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.288][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:31.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:31.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:31.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:31.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:31.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:31.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-21 16:07:31.303][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-09-21 16:07:31.304][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:31.305][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:31.312][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:31.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:31.314][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:31.315][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-09-21 16:07:31.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:31.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:31.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.329][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:31.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:31.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.335][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-21 16:07:31.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-21 16:07:31.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.339][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-21 16:07:31.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-21 16:07:31.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.345][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-21 16:07:31.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-21 16:07:31.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.349][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-21 16:07:31.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-21 16:07:31.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.355][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:31.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:31.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.359][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:31.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-09-21 16:07:31.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.364][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-21 16:07:31.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-21 16:07:31.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.369][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-21 16:07:31.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-21 16:07:31.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.374][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-21 16:07:31.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-21 16:07:31.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.379][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-21 16:07:31.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-21 16:07:31.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.383][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-21 16:07:31.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-21 16:07:31.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.388][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-21 16:07:31.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-21 16:07:31.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.393][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-21 16:07:31.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-21 16:07:31.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.398][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-21 16:07:31.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-21 16:07:31.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.403][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-21 16:07:31.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-21 16:07:31.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.408][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-21 16:07:31.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-21 16:07:31.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.413][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-21 16:07:31.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-21 16:07:31.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.418][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:31.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:31.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.428][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:31.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:31.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:31.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:31.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.437][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:31.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-09-21 16:07:31.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.442][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:31.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:31.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:31.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:31.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:31.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:31.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:31.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:31.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:31.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:31.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:31.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:31.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:31.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:31.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.476][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:31.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:31.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.480][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-21 16:07:31.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-21 16:07:31.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-21 16:07:31.485][self$createEntryFromContent] Accession numbers: 749674, 750690.
biodb.TRACE[2024-09-21 16:07:31.486][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-09-21 16:07:31.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-09-21 16:07:31.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.491][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-09-21 16:07:31.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-09-21 16:07:31.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.496][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-09-21 16:07:31.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-09-21 16:07:31.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.506][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-09-21 16:07:31.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-09-21 16:07:31.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.511][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-09-21 16:07:31.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-09-21 16:07:31.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.516][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-09-21 16:07:31.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-09-21 16:07:31.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-09-21 16:07:31.531][biodb::testThat]
biodb.INFO [2024-09-21 16:07:31.532][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2024-09-21 16:07:31.534][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-21 16:07:31.535][biodb::testThat]
biodb.INFO [2024-09-21 16:07:31.543][biodb::testThat]
biodb.INFO [2024-09-21 16:07:31.545][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2024-09-21 16:07:31.546][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-21 16:07:31.547][biodb::testThat]
biodb.WARN [2024-09-21 16:07:31.564][self$searchForEntries] This database is not searchable by field "name".
biodb.WARN [2024-09-21 16:07:31.586][self$searchForEntries] This database is not searchable by field "name".
biodb.INFO [2024-09-21 16:07:31.598][biodb::testThat]
biodb.INFO [2024-09-21 16:07:31.599][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2024-09-21 16:07:31.600][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-21 16:07:31.601][biodb::testThat]
biodb.TRACE[2024-09-21 16:07:31.625][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-09-21 16:07:31.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-09-21 16:07:31.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.630][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-09-21 16:07:31.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-09-21 16:07:31.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.635][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-09-21 16:07:31.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-09-21 16:07:31.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.639][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-09-21 16:07:31.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-09-21 16:07:31.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.672][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-09-21 16:07:31.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-09-21 16:07:31.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.677][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-09-21 16:07:31.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-09-21 16:07:31.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.681][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-09-21 16:07:31.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-09-21 16:07:31.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-21 16:07:31.686][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-09-21 16:07:31.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-09-21 16:07:31.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-21 16:07:31.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-09-21 16:07:31.700][biodb::testThat]
biodb.INFO [2024-09-21 16:07:31.701][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-09-21 16:07:31.702][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-21 16:07:31.703][biodb::testThat]
biodb.INFO [2024-09-21 16:07:31.714][biodb::testThat]
biodb.INFO [2024-09-21 16:07:31.715][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-09-21 16:07:31.716][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-21 16:07:31.722][biodb::testThat]
biodb.INFO [2024-09-21 16:07:31.733][biodb::testThat]
biodb.INFO [2024-09-21 16:07:31.734][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2024-09-21 16:07:31.736][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-21 16:07:31.737][biodb::testThat]
biodb.INFO [2024-09-21 16:07:31.746][biodb::testThat]
biodb.INFO [2024-09-21 16:07:31.747][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2024-09-21 16:07:31.748][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-21 16:07:31.750][biodb::testThat]
biodb.INFO [2024-09-21 16:07:31.758][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-09-21 16:07:31.760][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector nci.cactus from the request scheduler
biodb.INFO [2024-09-21 16:07:31.761][self$deleteConn] Connector "nci.cactus" deleted.
biodb.DEBUG[2024-09-21 16:07:31.762][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-09-21 16:07:31.763][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:31.764][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:31.765][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:31.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:31.767][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:31.769][FUN] Functions in observer BiodbConfig: [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 [2024-09-21 16:07:31.779][biodb::testContext]
biodb.INFO [2024-09-21 16:07:31.780][biodb::testContext] ********************************************************************************
biodb.INFO [2024-09-21 16:07:31.781][biodb::testContext] Test context - Example long tests
biodb.INFO [2024-09-21 16:07:31.782][biodb::testContext] ********************************************************************************
biodb.INFO [2024-09-21 16:07:31.783][biodb::testContext]
biodb.INFO [2024-09-21 16:07:31.786][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-09-21 16:07:31.788][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2024-09-21 16:07:31.793][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-09-21 16:07:31.795][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-09-21 16:07:31.796][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-09-21 16:07:31.797][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:31.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:31.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:31.800][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-09-21 16:07:31.801][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-09-21 16:07:31.802][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:31.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:31.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:31.806][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-09-21 16:07:31.807][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-09-21 16:07:31.808][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:31.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:31.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:31.811][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-09-21 16:07:31.812][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-09-21 16:07:31.814][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-09-21 16:07:31.815][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:31.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:31.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:31.818][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-09-21 16:07:31.819][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-09-21 16:07:31.820][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-09-21 16:07:31.821][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:31.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:31.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:31.825][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-09-21 16:07:31.826][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-09-21 16:07:31.827][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:31.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:31.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:31.830][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-09-21 16:07:31.831][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-09-21 16:07:31.833][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-09-21 16:07:31.834][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:31.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:31.836][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:31.837][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-09-21 16:07:31.838][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-09-21 16:07:31.839][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:31.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:31.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:31.842][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-09-21 16:07:31.844][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-09-21 16:07:31.845][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-09-21 16:07:31.846][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:31.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:31.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:31.849][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-09-21 16:07:31.850][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-09-21 16:07:31.852][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-09-21 16:07:31.853][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-09-21 16:07:31.854][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-09-21 16:07:31.855][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-09-21 16:07:31.856][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:31.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:31.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:31.859][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-09-21 16:07:31.861][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-09-21 16:07:31.862][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:31.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:31.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:31.865][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-09-21 16:07:31.866][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-09-21 16:07:31.867][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:31.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:31.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:31.870][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-09-21 16:07:31.872][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-09-21 16:07:31.873][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:31.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:31.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:31.876][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-09-21 16:07:31.877][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-09-21 16:07:31.878][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:31.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:31.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:31.881][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-09-21 16:07:31.883][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-09-21 16:07:31.884][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:31.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:31.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:31.887][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-09-21 16:07:31.888][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-09-21 16:07:31.897][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-09-21 16:07:31.898][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:31.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:31.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:31.901][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-09-21 16:07:31.902][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-09-21 16:07:31.904][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-09-21 16:07:31.905][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:31.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:31.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:31.908][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-09-21 16:07:31.910][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-09-21 16:07:31.911][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-09-21 16:07:31.913][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:31.914][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-21 16:07:31.915][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:31.916][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-09-21 16:07:31.917][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-09-21 16:07:31.919][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-21 16:07:31.920][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-09-21 16:07:31.921][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-21 16:07:31.922][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:31.923][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-09-21 16:07:31.925][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-21 16:07:31.926][self$setPropertyValue]
biodb.DEBUG[2024-09-21 16:07:31.927][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:31.928][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-09-21 16:07:31.928][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-09-21 16:07:31.928][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-09-21 16:07:31.928][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-09-21 16:07:31.928][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-09-21 16:07:31.929][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-09-21 16:07:31.931][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-21 16:07:31.932][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-21 16:07:31.933][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-21 16:07:31.934][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-21 16:07:31.935][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-21 16:07:31.936][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-21 16:07:31.937][self$setPropertyValue]
biodb.DEBUG[2024-09-21 16:07:31.939][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-21 16:07:31.940][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-21 16:07:31.941][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-09-21 16:07:31.942][self$setPropertyValue]
biodb.DEBUG[2024-09-21 16:07:31.943][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-09-21 16:07:31.945][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-09-21 16:07:31.946][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-09-21 16:07:31.948][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:31.949][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-21 16:07:31.950][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:31.951][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-09-21 16:07:31.952][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-09-21 16:07:31.954][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-21 16:07:31.955][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-09-21 16:07:31.956][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-21 16:07:31.957][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:31.958][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-09-21 16:07:31.959][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-21 16:07:31.961][self$setPropertyValue]
biodb.DEBUG[2024-09-21 16:07:31.962][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:31.963][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-09-21 16:07:31.963][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-09-21 16:07:31.963][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-09-21 16:07:31.963][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-09-21 16:07:31.963][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-09-21 16:07:31.964][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-09-21 16:07:31.965][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-21 16:07:31.966][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-21 16:07:31.968][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-21 16:07:31.969][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-21 16:07:31.970][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-21 16:07:31.971][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-21 16:07:31.972][self$setPropertyValue]
biodb.DEBUG[2024-09-21 16:07:31.973][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-21 16:07:31.974][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-21 16:07:31.975][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-09-21 16:07:31.977][self$setPropertyValue]
biodb.DEBUG[2024-09-21 16:07:31.978][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-09-21 16:07:31.980][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:31.981][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-09-21 16:07:31.982][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:31.983][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-21 16:07:31.985][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:31.986][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-09-21 16:07:31.987][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-09-21 16:07:31.988][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-21 16:07:31.989][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-09-21 16:07:31.991][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-21 16:07:31.992][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-09-21 16:07:31.993][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-09-21 16:07:31.994][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-21 16:07:31.995][self$setPropertyValue]
biodb.DEBUG[2024-09-21 16:07:31.996][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:31.998][self$setPropertyValue]
biodb.DEBUG[2024-09-21 16:07:31.999][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-09-21 16:07:32.000][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-21 16:07:32.001][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-21 16:07:32.002][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-21 16:07:32.003][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-21 16:07:32.004][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-21 16:07:32.005][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-21 16:07:32.007][self$setPropertyValue]
biodb.DEBUG[2024-09-21 16:07:32.008][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-21 16:07:32.009][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-21 16:07:32.010][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-09-21 16:07:32.011][self$setPropertyValue]
biodb.DEBUG[2024-09-21 16:07:32.013][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-09-21 16:07:32.014][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:32.016][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-09-21 16:07:32.017][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:32.018][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-21 16:07:32.019][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:32.020][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-09-21 16:07:32.022][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-09-21 16:07:32.023][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-21 16:07:32.024][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-09-21 16:07:32.025][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-21 16:07:32.026][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-09-21 16:07:32.027][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-09-21 16:07:32.029][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-21 16:07:32.030][self$setPropertyValue]
biodb.DEBUG[2024-09-21 16:07:32.031][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:32.032][self$setPropertyValue]
biodb.DEBUG[2024-09-21 16:07:32.033][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-09-21 16:07:32.035][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-21 16:07:32.036][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-21 16:07:32.037][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-21 16:07:32.038][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-21 16:07:32.039][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-21 16:07:32.040][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-21 16:07:32.041][self$setPropertyValue]
biodb.DEBUG[2024-09-21 16:07:32.043][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-21 16:07:32.044][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-21 16:07:32.045][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-09-21 16:07:32.046][self$setPropertyValue]
biodb.DEBUG[2024-09-21 16:07:32.047][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-09-21 16:07:32.049][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:32.051][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:32.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:32.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:32.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:32.061][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:32.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:32.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:32.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:32.066][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:32.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:32.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:32.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:32.072][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:32.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:32.074][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:32.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:32.077][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:32.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:32.079][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:32.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:32.083][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:32.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:32.085][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:32.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:32.088][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:32.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:32.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:32.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:32.093][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:32.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:32.096][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:32.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.098][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:32.099][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:32.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:32.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:32.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:32.104][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:32.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:32.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:32.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:32.109][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:32.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:32.112][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:32.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:32.115][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:32.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:32.117][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:32.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:32.120][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:32.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:32.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:32.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.124][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[2024-09-21 16:07:32.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:32.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:32.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:32.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:32.131][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:32.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:32.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:32.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:32.136][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:32.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:32.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:32.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.140][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[2024-09-21 16:07:32.141][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:32.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:32.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:32.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:32.147][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-09-21 16:07:32.148][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-09-21 16:07:32.150][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-09-21 16:07:32.152][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-09-21 16:07:32.153][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-09-21 16:07:32.155][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-09-21 16:07:32.156][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-09-21 16:07:32.158][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-09-21 16:07:32.160][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-09-21 16:07:32.161][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-09-21 16:07:32.163][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-09-21 16:07:32.164][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-09-21 16:07:32.166][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-09-21 16:07:32.167][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-09-21 16:07:32.169][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-09-21 16:07:32.170][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-09-21 16:07:32.172][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-09-21 16:07:32.173][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-09-21 16:07:32.175][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-09-21 16:07:32.177][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-09-21 16:07:32.178][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-09-21 16:07:32.180][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-09-21 16:07:32.181][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-09-21 16:07:32.183][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-09-21 16:07:32.184][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-09-21 16:07:32.186][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-09-21 16:07:32.187][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-09-21 16:07:32.189][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-09-21 16:07:32.190][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-09-21 16:07:32.192][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-09-21 16:07:32.194][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-09-21 16:07:32.195][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-09-21 16:07:32.197][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-09-21 16:07:32.198][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-09-21 16:07:32.200][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-09-21 16:07:32.201][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-09-21 16:07:32.203][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-09-21 16:07:32.204][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-09-21 16:07:32.211][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-09-21 16:07:32.212][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-09-21 16:07:32.214][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-09-21 16:07:32.215][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-09-21 16:07:32.217][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-09-21 16:07:32.219][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-09-21 16:07:32.220][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-09-21 16:07:32.222][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-09-21 16:07:32.223][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-09-21 16:07:32.225][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-09-21 16:07:32.226][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-09-21 16:07:32.228][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-09-21 16:07:32.230][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-09-21 16:07:32.231][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-09-21 16:07:32.233][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-09-21 16:07:32.234][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-09-21 16:07:32.236][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-09-21 16:07:32.237][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-09-21 16:07:32.239][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-09-21 16:07:32.241][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-09-21 16:07:32.242][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-09-21 16:07:32.244][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-09-21 16:07:32.245][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-09-21 16:07:32.247][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-09-21 16:07:32.248][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-09-21 16:07:32.250][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-09-21 16:07:32.251][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-09-21 16:07:32.253][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-09-21 16:07:32.255][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-09-21 16:07:32.256][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-09-21 16:07:32.258][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-09-21 16:07:32.259][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-09-21 16:07:32.261][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-09-21 16:07:32.262][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-09-21 16:07:32.264][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-09-21 16:07:32.265][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-09-21 16:07:32.267][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-09-21 16:07:32.268][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-09-21 16:07:32.270][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-09-21 16:07:32.272][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-09-21 16:07:32.273][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-09-21 16:07:32.275][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-09-21 16:07:32.276][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-09-21 16:07:32.278][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-09-21 16:07:32.279][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-09-21 16:07:32.281][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-09-21 16:07:32.283][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-09-21 16:07:32.284][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-09-21 16:07:32.285][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:32.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:32.288][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:32.290][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:32.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:32.292][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:32.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:32.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:32.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:32.297][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:32.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:32.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:32.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:32.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:32.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:32.305][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:32.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:32.307][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:32.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:32.309][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:32.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.311][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:32.312][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:32.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:32.314][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:32.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:32.316][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:32.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:32.319][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:32.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:32.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:32.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:32.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:32.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:32.327][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:32.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:32.329][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:32.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:32.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:32.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:32.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:32.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:32.336][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:32.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:32.338][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:32.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.340][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:32.341][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:32.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:32.343][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:32.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:32.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:32.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:32.349][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:32.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:32.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:32.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:32.353][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:32.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:32.356][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:32.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:32.363][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:32.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:32.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:32.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:32.369][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:32.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:32.371][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:32.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:32.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:32.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:32.376][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:32.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:32.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:32.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:32.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:32.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.383][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[2024-09-21 16:07:32.384][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:32.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:32.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:32.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:32.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:32.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:32.391][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:32.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:32.393][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:32.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:32.395][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:32.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.397][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-21 16:07:32.398][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:32.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:32.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:32.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:32.403][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:32.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.405][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[2024-09-21 16:07:32.406][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:32.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:32.408][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:32.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:32.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:32.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.412][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[2024-09-21 16:07:32.413][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-21 16:07:32.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:32.415][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:32.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:32.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:32.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.419][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[2024-09-21 16:07:32.423][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc-longtests/meat/biodbNci.Rcheck/biodbNci/definitions.yml".
biodb.DEBUG[2024-09-21 16:07:32.424][self$getDbsInfo()$define] Define connector nci.cactus.
biodb.DEBUG[2024-09-21 16:07:32.426][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-09-21 16:07:32.428][self$setPropertyValue] Setting property "description" to "National Cancer Institute (USA) CACTUS Database.".
biodb.DEBUG[2024-09-21 16:07:32.429][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:32.430][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-21 16:07:32.431][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-09-21 16:07:32.432][self$setPropertyValue] Setting property "dwnld.ext" to "gz".
biodb.DEBUG[2024-09-21 16:07:32.434][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:32.435][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-21 16:07:32.436][self$setPropertyValue] Setting property "entry.content.type" to "sdf".
biodb.DEBUG[2024-09-21 16:07:32.437][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-21 16:07:32.438][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:32.439][self$setPropertyValue] Setting property "name" to "NCI CACTUS".
biodb.DEBUG[2024-09-21 16:07:32.441][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-21 16:07:32.442][self$setPropertyValue] Setting property "parsing.expr" to "NSC".
biodb.DEBUG[2024-09-21 16:07:32.442][self$setPropertyValue] Setting property "parsing.expr" to "DTP names".
biodb.DEBUG[2024-09-21 16:07:32.442][self$setPropertyValue] Setting property "parsing.expr" to "Standard InChI".
biodb.DEBUG[2024-09-21 16:07:32.442][self$setPropertyValue] Setting property "parsing.expr" to "c("Standard InChIKey", "^InChIKey=(.*)$")".
biodb.DEBUG[2024-09-21 16:07:32.442][self$setPropertyValue] Setting property "parsing.expr" to "Formula".
biodb.DEBUG[2024-09-21 16:07:32.442][self$setPropertyValue] Setting property "parsing.expr" to "Molecular Weight".
biodb.DEBUG[2024-09-21 16:07:32.442][self$setPropertyValue] Setting property "parsing.expr" to "CAS".
biodb.DEBUG[2024-09-21 16:07:32.443][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-09-21 16:07:32.444][self$setPropertyValue]
biodb.DEBUG[2024-09-21 16:07:32.445][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-09-21 16:07:32.447][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-21 16:07:32.448][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-21 16:07:32.449][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-21 16:07:32.450][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-21 16:07:32.451][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-21 16:07:32.452][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-21 16:07:32.454][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/".
biodb.DEBUG[2024-09-21 16:07:32.454][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/".
biodb.DEBUG[2024-09-21 16:07:32.454][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/download/nci/".
biodb.DEBUG[2024-09-21 16:07:32.454][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/download/nci/NCI-Open_2012-05-01.sdf.gz".
biodb.DEBUG[2024-09-21 16:07:32.455][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-21 16:07:32.456][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-21 16:07:32.457][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-09-21 16:07:32.458][self$setPropertyValue]
biodb.DEBUG[2024-09-21 16:07:32.460][self$getEntryFields()$define] Define field nci.cactus.id.
biodb.DEBUG[2024-09-21 16:07:32.463][super$initialize] Initialize connector nci.cactus.
biodb.DEBUG[2024-09-21 16:07:32.464][super$initialize] Register connector nci.cactus with the request scheduler
biodb.DEBUG[2024-09-21 16:07:32.466][private$bdb$getRequestScheduler()$re ...] Register connector nci.cactus.
biodb.DEBUG[2024-09-21 16:07:32.467][private$addConnectorRules] Create new rule for URL "cactus.nci.nih.gov" of connector "nci.cactus".
biodb.DEBUG[2024-09-21 16:07:32.469][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-09-21 16:07:32.470][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-09-21 16:07:32.472][rule$addConnector] Connector "nci.cactus" is already listed in rule "cactus.nci.nih.gov".
biodb.DEBUG[2024-09-21 16:07:32.473][rule$addConnector] Connector "nci.cactus" is already listed in rule "cactus.nci.nih.gov".
biodb.DEBUG[2024-09-21 16:07:32.475][rule$addConnector] Connector "nci.cactus" is already listed in rule "cactus.nci.nih.gov".
biodb.DEBUG[2024-09-21 16:07:32.476][biodb$getFactory()$createConn] Creating new connector nci.cactus for database class nci.cactus .
biodb.INFO [2024-09-21 16:07:32.477][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-09-21 16:07:32.478][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector nci.cactus from the request scheduler
biodb.INFO [2024-09-21 16:07:32.479][self$deleteConn] Connector "nci.cactus" deleted.
biodb.DEBUG[2024-09-21 16:07:32.481][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-09-21 16:07:32.482][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-21 16:07:32.483][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-21 16:07:32.484][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-21 16:07:32.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-21 16:07:32.486][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-09-21 16:07:32.487][FUN] Functions in observer 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 
   4.82    0.43    5.26

'R CMD check' output

##############################################################################
##############################################################################
###
### Running command:
###
###   F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbNci_1.9.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'F:/biocbuild/bbs-3.20-bioc-longtests/meat/biodbNci.Rcheck'
* using R version 4.4.1 (2024-06-14 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 13.2.0
    GNU Fortran (GCC) 13.2.0
* running under: Windows Server 2022 x64 (build 20348)
* 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 '1.9.0'
* 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 whether package 'biodbNci' can be installed ... OK
* used C++ compiler: 'G__~1.EXE (GCC) 13.2.0'
* 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 dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... SKIPPED
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking 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: OK

Installation output

biodbNci.Rcheck/00install.out

* installing *source* package 'biodbNci' ...
** using staged installation
** libs
using C++ compiler: 'G__~1.EXE (GCC) 13.2.0'
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/testthat/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/testthat/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c extractEntries.cpp -o extractEntries.o
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/testthat/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c test-100-example.cpp -o test-100-example.o
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/testthat/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c test-runner.cpp -o test-runner.o
g++ -std=gnu++17 -shared -s -static-libgcc -o biodbNci.dll tmp.def RcppExports.o extractEntries.o test-100-example.o test-runner.o -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib -LF:/biocbuild/bbs-3.20-bioc/R/bin/x64 -lR
installing to F:/biocbuild/bbs-3.20-bioc-longtests/meat/biodbNci.Rcheck/00LOCK-biodbNci/00new/biodbNci/libs/x64
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbNci)