Back to Build/check report for BioC 3.17
A[B]CDEFGHIJKLMNOPQRSTUVWXYZ

This page was generated on 2023-01-02 09:00:21 -0500 (Mon, 02 Jan 2023).

HostnameOSArch (*)R versionInstalled pkgs
palomino5Windows Server 2022 Datacenterx64R Under development (unstable) (2022-12-25 r83502 ucrt) -- "Unsuffered Consequences" 4165
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

CHECK results for biodbLipidmaps on palomino5


To the developers/maintainers of the biodbLipidmaps package:
Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 182/2158HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbLipidmaps 1.5.0  (landing page)
Pierrick Roger
Snapshot Date: 2022-12-28 11:00:06 -0500 (Wed, 28 Dec 2022)
git_url: https://git.bioconductor.org/packages/biodbLipidmaps
git_branch: master
git_last_commit: f341783
git_last_commit_date: 2022-12-01 07:24:56 -0500 (Thu, 01 Dec 2022)
palomino5Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  

Summary

Package: biodbLipidmaps
Version: 1.5.0
Command: F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:biodbLipidmaps.install-out.txt --library=F:\biocbuild\bbs-3.17-bioc\R\library --no-vignettes --timings biodbLipidmaps_1.5.0.tar.gz
StartedAt: 2022-12-28 21:59:13 -0500 (Wed, 28 Dec 2022)
EndedAt: 2022-12-28 22:00:28 -0500 (Wed, 28 Dec 2022)
EllapsedTime: 75.1 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbLipidmaps.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:biodbLipidmaps.install-out.txt --library=F:\biocbuild\bbs-3.17-bioc\R\library --no-vignettes --timings biodbLipidmaps_1.5.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'F:/biocbuild/bbs-3.17-bioc-rtools43/meat/biodbLipidmaps.Rcheck'
* using R Under development (unstable) (2022-12-25 r83502 ucrt)
* using platform: x86_64-w64-mingw32 (64-bit)
* R was compiled by
    gcc.exe (GCC) 10.4.0
    GNU Fortran (GCC) 10.4.0
* running under: Windows Server x64 (build 20348)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'biodbLipidmaps/DESCRIPTION' ... OK
* this is package 'biodbLipidmaps' version '1.5.0'
* 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 'biodbLipidmaps' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R 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 ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in 'vignettes' ... OK
* checking examples ... OK
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
  Running 'testthat.R'
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: OK

Installation output

biodbLipidmaps.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD INSTALL biodbLipidmaps
###
##############################################################################
##############################################################################


* installing to library 'F:/biocbuild/bbs-3.17-bioc/R/library'
* installing *source* package 'biodbLipidmaps' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbLipidmaps)

Tests output

biodbLipidmaps.Rcheck/tests/testthat.Rout


R Under development (unstable) (2022-12-25 r83502 ucrt) -- "Unsuffered Consequences"
Copyright (C) 2022 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (64-bit)

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

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

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

> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbLipidmaps)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbLipidmaps")
biodb.INFO [2022-12-28 22:00:00.773][biodb::testContext]
biodb.INFO [2022-12-28 22:00:00.776][biodb::testContext] ********************************************************************************
biodb.INFO [2022-12-28 22:00:00.777][biodb::testContext] Test context - Generic tests
biodb.INFO [2022-12-28 22:00:00.778][biodb::testContext] ********************************************************************************
biodb.INFO [2022-12-28 22:00:00.780][biodb::testContext]
biodb.INFO [2022-12-28 22:00:00.797][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.7.0.
biodb.DEBUG[2022-12-28 22:00:00.800][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.17-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2022-12-28 22:00:00.808][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-12-28 22:00:00.810][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-12-28 22:00:00.811][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-12-28 22:00:00.813][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:00.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:00.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:00.816][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-12-28 22:00:00.835][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-12-28 22:00:00.836][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:00.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:00.839][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:00.840][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-12-28 22:00:00.842][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-12-28 22:00:00.843][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:00.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:00.845][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:00.846][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-12-28 22:00:00.847][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-12-28 22:00:00.849][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-12-28 22:00:00.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:00.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:00.852][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:00.853][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-12-28 22:00:00.855][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-12-28 22:00:00.856][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-12-28 22:00:00.857][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:00.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:00.859][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:00.861][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-12-28 22:00:00.862][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-12-28 22:00:00.863][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:00.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:00.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:00.867][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-12-28 22:00:00.868][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-12-28 22:00:00.869][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-12-28 22:00:00.870][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:00.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:00.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:00.874][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-12-28 22:00:00.875][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-12-28 22:00:00.876][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:00.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:00.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:00.880][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-12-28 22:00:00.889][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-12-28 22:00:00.891][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-12-28 22:00:00.892][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:00.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:00.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:00.895][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-12-28 22:00:00.896][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-12-28 22:00:00.897][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-12-28 22:00:00.898][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-12-28 22:00:00.899][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-12-28 22:00:00.900][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-12-28 22:00:00.901][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:00.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:00.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:00.904][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-12-28 22:00:00.905][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-12-28 22:00:00.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:00.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:00.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:00.909][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-12-28 22:00:00.910][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-12-28 22:00:00.911][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:00.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:00.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:00.914][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-12-28 22:00:00.915][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-12-28 22:00:00.916][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:00.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:00.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:00.919][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-12-28 22:00:00.920][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-12-28 22:00:00.921][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:00.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:00.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:00.924][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-12-28 22:00:00.925][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-12-28 22:00:00.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:00.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:00.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:00.928][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-12-28 22:00:00.929][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-12-28 22:00:00.933][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2022-12-28 22:00:00.934][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:00.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:00.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:00.937][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-12-28 22:00:00.938][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-12-28 22:00:00.939][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-12-28 22:00:00.940][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:00.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:00.942][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:00.945][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-12-28 22:00:00.970][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:00.983][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2022-12-28 22:00:00.985][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:00.986][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-12-28 22:00:00.988][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:00.990][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-12-28 22:00:00.991][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:00.993][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-12-28 22:00:00.995][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-12-28 22:00:00.996][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-12-28 22:00:00.998][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:01.000][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-12-28 22:00:01.001][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-12-28 22:00:01.003][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:01.005][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:01.006][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-12-28 22:00:01.006][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-12-28 22:00:01.006][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-12-28 22:00:01.006][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-12-28 22:00:01.006][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-12-28 22:00:01.008][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-12-28 22:00:01.010][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-12-28 22:00:01.011][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-12-28 22:00:01.013][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-12-28 22:00:01.014][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-12-28 22:00:01.016][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-12-28 22:00:01.017][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-12-28 22:00:01.019][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:01.021][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-12-28 22:00:01.022][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-12-28 22:00:01.024][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:01.025][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:01.027][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-12-28 22:00:01.030][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:01.031][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-12-28 22:00:01.033][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:01.035][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-12-28 22:00:01.036][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:01.038][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-12-28 22:00:01.039][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:01.041][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-12-28 22:00:01.043][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-12-28 22:00:01.044][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-12-28 22:00:01.046][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:01.048][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-12-28 22:00:01.049][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-12-28 22:00:01.051][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:01.052][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:01.054][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-12-28 22:00:01.054][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-12-28 22:00:01.054][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-12-28 22:00:01.054][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-12-28 22:00:01.054][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-12-28 22:00:01.056][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-12-28 22:00:01.057][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-12-28 22:00:01.059][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-12-28 22:00:01.060][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-12-28 22:00:01.062][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-12-28 22:00:01.063][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-12-28 22:00:01.065][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-12-28 22:00:01.066][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:01.068][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-12-28 22:00:01.070][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-12-28 22:00:01.071][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:01.073][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:01.075][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-12-28 22:00:01.077][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:01.079][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2022-12-28 22:00:01.080][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:01.082][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-12-28 22:00:01.084][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:01.085][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-12-28 22:00:01.087][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:01.089][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-12-28 22:00:01.090][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-12-28 22:00:01.092][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-12-28 22:00:01.093][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:01.095][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-12-28 22:00:01.097][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-12-28 22:00:01.098][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:01.100][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:01.101][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:01.103][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-12-28 22:00:01.105][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-12-28 22:00:01.106][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-12-28 22:00:01.108][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-12-28 22:00:01.109][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-12-28 22:00:01.111][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-12-28 22:00:01.112][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-12-28 22:00:01.114][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:01.116][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-12-28 22:00:01.117][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-12-28 22:00:01.119][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:01.120][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:01.122][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-12-28 22:00:01.125][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:01.126][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-12-28 22:00:01.128][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:01.130][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-12-28 22:00:01.131][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:01.133][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-12-28 22:00:01.134][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:01.136][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-12-28 22:00:01.138][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-12-28 22:00:01.140][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-12-28 22:00:01.141][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:01.143][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-12-28 22:00:01.151][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-12-28 22:00:01.153][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:01.154][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:01.156][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:01.158][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-12-28 22:00:01.159][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-12-28 22:00:01.161][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-12-28 22:00:01.162][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-12-28 22:00:01.164][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-12-28 22:00:01.165][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-12-28 22:00:01.167][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-12-28 22:00:01.169][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:01.170][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-12-28 22:00:01.172][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-12-28 22:00:01.173][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:01.175][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:01.180][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-12-28 22:00:01.182][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:01.185][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:01.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:01.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:01.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:01.192][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:01.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:01.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:01.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:01.200][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:01.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:01.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:01.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.206][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.DEBUG[2022-12-28 22:00:01.207][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:01.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:01.210][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:01.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:01.214][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:01.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:01.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:01.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:01.222][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:01.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:01.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:01.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.228][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:01.229][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:01.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:01.232][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:01.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:01.237][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:01.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:01.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:01.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:01.244][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:01.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:01.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:01.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.250][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:01.251][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:01.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:01.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:01.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:01.258][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:01.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:01.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:01.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:01.266][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:01.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:01.269][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:01.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:01.273][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:01.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:01.276][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:01.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:01.280][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:01.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:01.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:01.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:01.288][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:01.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:01.290][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:01.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:01.295][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:01.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:01.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:01.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.301][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:01.302][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:01.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:01.305][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:01.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:01.309][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-12-28 22:00:01.315][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-12-28 22:00:01.318][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-12-28 22:00:01.320][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-12-28 22:00:01.322][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-12-28 22:00:01.324][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-12-28 22:00:01.326][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-12-28 22:00:01.328][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-12-28 22:00:01.330][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-12-28 22:00:01.332][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-12-28 22:00:01.334][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-12-28 22:00:01.337][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-12-28 22:00:01.339][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-12-28 22:00:01.341][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-12-28 22:00:01.343][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-12-28 22:00:01.345][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-12-28 22:00:01.347][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-12-28 22:00:01.349][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-12-28 22:00:01.351][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-12-28 22:00:01.353][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-12-28 22:00:01.356][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-12-28 22:00:01.358][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-12-28 22:00:01.360][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-12-28 22:00:01.362][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-12-28 22:00:01.364][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-12-28 22:00:01.366][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-12-28 22:00:01.368][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-12-28 22:00:01.370][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-12-28 22:00:01.371][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-12-28 22:00:01.373][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-12-28 22:00:01.374][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-12-28 22:00:01.375][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-12-28 22:00:01.377][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-12-28 22:00:01.378][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-12-28 22:00:01.380][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-12-28 22:00:01.381][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-12-28 22:00:01.382][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-12-28 22:00:01.384][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-12-28 22:00:01.385][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-12-28 22:00:01.387][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-12-28 22:00:01.388][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-12-28 22:00:01.389][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-12-28 22:00:01.391][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-12-28 22:00:01.392][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-12-28 22:00:01.393][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-12-28 22:00:01.395][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-12-28 22:00:01.396][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-12-28 22:00:01.397][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-12-28 22:00:01.399][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-12-28 22:00:01.400][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-12-28 22:00:01.401][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-12-28 22:00:01.403][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-12-28 22:00:01.404][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-12-28 22:00:01.406][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-12-28 22:00:01.407][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-12-28 22:00:01.409][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-12-28 22:00:01.410][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-12-28 22:00:01.411][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-12-28 22:00:01.413][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-12-28 22:00:01.414][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-12-28 22:00:01.415][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-12-28 22:00:01.417][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-12-28 22:00:01.418][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-12-28 22:00:01.419][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-12-28 22:00:01.421][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-12-28 22:00:01.422][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-12-28 22:00:01.423][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-12-28 22:00:01.425][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-12-28 22:00:01.426][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-12-28 22:00:01.427][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-12-28 22:00:01.429][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-12-28 22:00:01.431][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-12-28 22:00:01.432][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-12-28 22:00:01.438][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-12-28 22:00:01.439][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-12-28 22:00:01.440][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-12-28 22:00:01.442][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-12-28 22:00:01.444][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-12-28 22:00:01.445][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-12-28 22:00:01.446][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-12-28 22:00:01.448][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-12-28 22:00:01.449][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-12-28 22:00:01.450][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-12-28 22:00:01.483][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-12-28 22:00:01.487][initialize] This is biodb version 1.7.0.
biodb.DEBUG[2022-12-28 22:00:01.491][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-12-28 22:00:01.493][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:01.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:01.496][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:01.504][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:01.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:01.506][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:01.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:01.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:01.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:01.511][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:01.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:01.513][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:01.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:01.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:01.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:01.518][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:01.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:01.520][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:01.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:01.521][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:01.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.523][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:01.524][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:01.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:01.526][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:01.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:01.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:01.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.530][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:01.531][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:01.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:01.533][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:01.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:01.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:01.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:01.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:01.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:01.539][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:01.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:01.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:01.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:01.544][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:01.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:01.545][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:01.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:01.547][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:01.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:01.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:01.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:01.552][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:01.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:01.553][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:01.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:01.556][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:01.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:01.558][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:01.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:01.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:01.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.562][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:01.563][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:01.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:01.564][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:01.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:01.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:01.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:01.571][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:01.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:01.573][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:01.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:01.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:01.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:01.578][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:01.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:01.580][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:01.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:01.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:01.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:01.585][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:01.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:01.586][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:01.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:01.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:01.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:01.591][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:01.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:01.593][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:01.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:01.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:01.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:01.598][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:01.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:01.600][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:01.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:01.602][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:01.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:01.605][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:01.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:01.607][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:01.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:01.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:01.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:01.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:01.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:01.614][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:01.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:01.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:01.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:01.621][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.17-bioc/R/library/biodbLipidmaps/definitions.yml".
biodb.DEBUG[2022-12-28 22:00:01.631][self$getDbsInfo()$define] Define connector lipidmaps.structure.
biodb.DEBUG[2022-12-28 22:00:01.633][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:01.634][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2022-12-28 22:00:01.635][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:01.636][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-12-28 22:00:01.637][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:01.638][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-12-28 22:00:01.639][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:01.640][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-12-28 22:00:01.642][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-12-28 22:00:01.644][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-12-28 22:00:01.645][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:01.647][self$setPropertyValue] Setting property "name" to "LIPID MAPS Structure".
biodb.DEBUG[2022-12-28 22:00:01.649][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-12-28 22:00:01.650][self$setPropertyValue] Setting property "parsing.expr" to "LM_ID".
biodb.DEBUG[2022-12-28 22:00:01.650][self$setPropertyValue] Setting property "parsing.expr" to "CHEBI_ID".
biodb.DEBUG[2022-12-28 22:00:01.650][self$setPropertyValue] Setting property "parsing.expr" to "HMDBID".
biodb.DEBUG[2022-12-28 22:00:01.650][self$setPropertyValue] Setting property "parsing.expr" to "KEGG_ID".
biodb.DEBUG[2022-12-28 22:00:01.650][self$setPropertyValue] Setting property "parsing.expr" to "PUBCHEM_COMPOUND_ID".
biodb.DEBUG[2022-12-28 22:00:01.650][self$setPropertyValue] Setting property "parsing.expr" to "SYSTEMATIC_NAME".
biodb.DEBUG[2022-12-28 22:00:01.650][self$setPropertyValue] Setting property "parsing.expr" to "MASS".
biodb.DEBUG[2022-12-28 22:00:01.650][self$setPropertyValue] Setting property "parsing.expr" to "FORMULA".
biodb.DEBUG[2022-12-28 22:00:01.650][self$setPropertyValue] Setting property "parsing.expr" to "COMMON_NAME".
biodb.DEBUG[2022-12-28 22:00:01.652][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:01.654][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-12-28 22:00:01.654][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-12-28 22:00:01.655][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-12-28 22:00:01.657][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-12-28 22:00:01.658][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-12-28 22:00:01.660][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-12-28 22:00:01.662][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-12-28 22:00:01.663][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-12-28 22:00:01.665][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-12-28 22:00:01.666][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/data/".
biodb.DEBUG[2022-12-28 22:00:01.666][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/databases/lmsd/".
biodb.DEBUG[2022-12-28 22:00:01.668][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-12-28 22:00:01.669][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-12-28 22:00:01.671][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:01.673][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:01.681][self$getEntryFields()$define] Define field lipidmaps.structure.id.
biodb.DEBUG[2022-12-28 22:00:01.683][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-12-28 22:00:01.719][initialize] Initialize connector lipidmaps.structure.
biodb.DEBUG[2022-12-28 22:00:01.721][initialize] Register connector lipidmaps.structure with the request scheduler
biodb.DEBUG[2022-12-28 22:00:01.726][private$bdb$getRequestScheduler()$re ...] Register connector lipidmaps.structure.
biodb.DEBUG[2022-12-28 22:00:01.732][private$addConnectorRules] Create new rule for URL "www.lipidmaps.org" of connector "lipidmaps.structure".
biodb.DEBUG[2022-12-28 22:00:01.737][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2022-12-28 22:00:01.739][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2022-12-28 22:00:01.741][rule$addConnector] Connector "lipidmaps.structure" is already listed in rule "www.lipidmaps.org".
biodb.DEBUG[2022-12-28 22:00:01.743][biodb$getFactory()$createConn] Creating new connector lipidmaps.structure for database class lipidmaps.structure .
biodb.INFO [2022-12-28 22:00:01.768][biodb::testThat]
biodb.INFO [2022-12-28 22:00:01.770][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2022-12-28 22:00:01.772][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-12-28 22:00:01.774][biodb::testThat]
biodb.TRACE[2022-12-28 22:00:01.780][loadFileContents] Loaded 1 files from cache: [1]: "F:/biocbuild/bbs-3.17-bioc/R/library/biodbLipidmaps/testref/entry-lipidmaps.structure-LMFA00000001-content.tsv".
biodb.DEBUG[2022-12-28 22:00:01.788][biodb$getFactory()$createEntryFromCo ...] Creating LIPID MAPS Structure entries from 1 content(s).
biodb.DEBUG[2022-12-28 22:00:01.793][biodb$getFactory()$createEntryFromCo ...] Parsing 1 LIPID MAPS Structure entries.
biodb.DEBUG[2022-12-28 22:00:01.803][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-12-28 22:00:01.805][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:01.807][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:01.827][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:01.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:01.830][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:01.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-12-28 22:00:01.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:01.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:01.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:01.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:01.854][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:01.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:01.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:01.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:01.879][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-12-28 22:00:01.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-12-28 22:00:01.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:01.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:01.886][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-12-28 22:00:01.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-12-28 22:00:01.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:01.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:01.893][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-12-28 22:00:01.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-12-28 22:00:01.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:01.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:01.900][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:01.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:01.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:01.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:01.927][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:01.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:01.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:01.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:01.935][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:01.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:01.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:01.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:01.940][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:01.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:01.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:01.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:01.948][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-12-28 22:00:01.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:01.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:01.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:01.952][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-12-28 22:00:01.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:01.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:01.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:01.962][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-12-28 22:00:01.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-12-28 22:00:01.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:01.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:01.968][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-12-28 22:00:01.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-12-28 22:00:01.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:01.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:01.975][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:01.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:01.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:01.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:01.980][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:01.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:01.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:01.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.018][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-12-28 22:00:02.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:02.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.023][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2022-12-28 22:00:02.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:02.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.027][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:02.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:02.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.031][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:02.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:02.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.036][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-12-28 22:00:02.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:02.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.056][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:02.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:02.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.061][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:02.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:02.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.088][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:02.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:02.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.093][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:02.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:02.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.097][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:02.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:02.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.105][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:02.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:02.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.110][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:02.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:02.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.115][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:02.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:02.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.121][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:02.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:02.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.127][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:02.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:02.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:02.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:02.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.139][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:02.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:02.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:02.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:02.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.155][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:02.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:02.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.160][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:02.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:02.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-12-28 22:00:02.164][biodb$getFactory()$createEntryFromCo ...] Accession numbers: LMFA00000001.
biodb.TRACE[2022-12-28 22:00:02.174][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-12-28 22:00:02.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-12-28 22:00:02.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.181][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-12-28 22:00:02.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-12-28 22:00:02.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.186][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-12-28 22:00:02.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-12-28 22:00:02.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.193][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-12-28 22:00:02.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-12-28 22:00:02.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.219][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:02.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:02.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.238][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:02.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:02.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:02.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:02.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:02.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:02.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:02.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:02.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:02.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:02.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.267][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:02.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:02.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:02.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:02.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.276][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:02.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:02.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.280][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:02.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:02.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.285][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:02.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:02.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:02.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:02.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:02.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:02.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:02.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:02.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.320][ef$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:02.322][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:02.323][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.325][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.327][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:02.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:02.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.345][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:02.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:02.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.352][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:02.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:02.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.359][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:02.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:02.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.366][ef$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:02.368][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:02.369][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.371][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.373][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:02.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:02.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.391][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:02.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:02.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.397][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:02.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:02.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.402][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:02.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:02.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.406][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:02.407][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:02.408][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.409][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.410][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:02.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:02.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.421][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-12-28 22:00:02.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-12-28 22:00:02.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.429][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-12-28 22:00:02.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-12-28 22:00:02.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.433][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-12-28 22:00:02.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-12-28 22:00:02.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.437][ef$get] Asked field names are: formula.
biodb.TRACE[2022-12-28 22:00:02.438][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-12-28 22:00:02.439][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.440][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.441][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-12-28 22:00:02.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-12-28 22:00:02.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.452][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:02.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:02.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.457][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:02.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:02.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.462][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:02.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:02.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.466][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:02.467][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:02.468][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.469][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.470][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:02.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:02.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.485][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:02.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:02.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.492][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:02.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:02.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.499][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:02.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:02.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.506][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:02.508][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:02.510][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.511][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.513][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:02.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:02.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.531][ef$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:02.533][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:02.535][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.537][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.545][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:02.547][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:02.548][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.549][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.558][ef$get] Asked field names are: formula.
biodb.TRACE[2022-12-28 22:00:02.560][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-12-28 22:00:02.562][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.564][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.573][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:02.576][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:02.577][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.579][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.586][ef$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:02.588][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:02.590][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.591][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.601][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:02.603][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:02.605][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.606][ef$get] fields variable is a list.
biodb.INFO [2022-12-28 22:00:02.618][biodb::testThat]
biodb.INFO [2022-12-28 22:00:02.619][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2022-12-28 22:00:02.621][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-12-28 22:00:02.623][biodb::testThat]
biodb.DEBUG[2022-12-28 22:00:02.642][private$loadEntries] Creating entries from ids [1]: "LMFA00000001".
biodb.DEBUG[2022-12-28 22:00:02.652][conn$getEntryContent] Get LIPID MAPS Structure entry content(s) for 1 id(s)...
biodb.TRACE[2022-12-28 22:00:02.659][cch$loadFileContent] Trying to load 1 files from cache: [1]: "LMFA00000001".
biodb.TRACE[2022-12-28 22:00:02.661][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-12-28 22:00:02.665][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA00000001.tsv".
biodb.DEBUG[2022-12-28 22:00:02.667][conn$getEntryContent] 1 LIPID MAPS Structure entry content(s) loaded from cache.
biodb.DEBUG[2022-12-28 22:00:02.729][self$createEntryFromContent] Creating LIPID MAPS Structure entries from 1 content(s).
biodb.DEBUG[2022-12-28 22:00:02.731][self$createEntryFromContent] Parsing 1 LIPID MAPS Structure entries.
biodb.DEBUG[2022-12-28 22:00:02.734][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-12-28 22:00:02.735][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:02.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:02.746][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:02.748][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:02.750][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:02.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-12-28 22:00:02.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:02.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:02.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.764][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:02.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:02.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.776][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-12-28 22:00:02.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-12-28 22:00:02.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.783][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-12-28 22:00:02.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-12-28 22:00:02.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.794][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-12-28 22:00:02.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-12-28 22:00:02.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.799][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-12-28 22:00:02.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-12-28 22:00:02.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.804][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:02.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:02.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.810][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:02.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:02.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.819][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:02.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:02.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.824][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:02.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:02.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.833][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-12-28 22:00:02.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:02.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.839][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-12-28 22:00:02.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:02.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.848][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-12-28 22:00:02.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-12-28 22:00:02.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.853][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-12-28 22:00:02.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-12-28 22:00:02.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.860][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:02.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:02.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.865][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:02.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:02.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.874][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-12-28 22:00:02.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:02.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.880][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2022-12-28 22:00:02.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:02.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.884][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:02.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:02.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.888][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:02.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:02.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.892][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-12-28 22:00:02.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:02.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.903][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:02.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:02.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.908][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:02.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:02.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.912][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:02.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:02.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.916][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:02.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:02.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.921][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:02.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:02.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.928][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:02.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:02.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.932][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:02.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:02.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.936][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:02.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:02.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.940][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:02.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:02.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.945][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:02.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:02.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:02.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:02.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.953][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:02.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:02.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.960][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:02.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:02.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.964][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:02.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:02.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.969][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:02.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:02.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-12-28 22:00:02.973][self$createEntryFromContent] Accession numbers: LMFA00000001.
biodb.TRACE[2022-12-28 22:00:02.974][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2022-12-28 22:00:02.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2022-12-28 22:00:02.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.978][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2022-12-28 22:00:02.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2022-12-28 22:00:02.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:02.982][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2022-12-28 22:00:02.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2022-12-28 22:00:02.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:02.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-12-28 22:00:02.992][biodb::testThat]
biodb.INFO [2022-12-28 22:00:02.993][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2022-12-28 22:00:02.994][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-12-28 22:00:02.995][biodb::testThat]
biodb.TRACE[2022-12-28 22:00:02.998][ef$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:02.999][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:03.000][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:03.001][ef$get] fields variable is a list.
biodb.DEBUG[2022-12-28 22:00:03.003][function(conn, opt)] Testing searchForEntries() with entry "LMFA00000001" and field "name".
biodb.TRACE[2022-12-28 22:00:03.028][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:03.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:03.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:03.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:03.033][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:03.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:03.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:03.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:03.037][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:03.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:03.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:03.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-12-28 22:00:03.043][function(conn, opt)] With value "2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride".
biodb.DEBUG[2022-12-28 22:00:03.056][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride".
biodb.DEBUG[2022-12-28 22:00:03.077][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-12-28 22:00:03.099][cch$loadFileContent] Trying to load 1 files from cache: [1]: "e8702bf6dc5a5afd048f747914fd7a6a".
biodb.TRACE[2022-12-28 22:00:03.101][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-12-28 22:00:03.110][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.content".
biodb.DEBUG[2022-12-28 22:00:03.112][function(conn, opt)] With found IDs [1]: "LMFA00000001".
biodb.TRACE[2022-12-28 22:00:03.127][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:03.128][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:03.130][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:03.131][ef$get] fields variable is a list.
biodb.INFO [2022-12-28 22:00:03.133][biodb::testThat]
biodb.INFO [2022-12-28 22:00:03.134][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2022-12-28 22:00:03.135][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-12-28 22:00:03.136][biodb::testThat]
biodb.TRACE[2022-12-28 22:00:03.165][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:03.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:03.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:03.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:03.171][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:03.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:03.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:03.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:03.175][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:03.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:03.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:03.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-12-28 22:00:03.269][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride".
biodb.DEBUG[2022-12-28 22:00:03.273][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-12-28 22:00:03.274][cch$loadFileContent] Trying to load 1 files from cache: [1]: "e8702bf6dc5a5afd048f747914fd7a6a".
biodb.TRACE[2022-12-28 22:00:03.276][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-12-28 22:00:03.277][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.content".
biodb.INFO [2022-12-28 22:00:03.295][biodb::testThat]
biodb.INFO [2022-12-28 22:00:03.297][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2022-12-28 22:00:03.299][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-12-28 22:00:03.300][biodb::testThat]
biodb.TRACE[2022-12-28 22:00:03.324][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-12-28 22:00:03.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-12-28 22:00:03.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:03.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:03.328][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-12-28 22:00:03.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-12-28 22:00:03.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:03.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:03.333][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-12-28 22:00:03.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-12-28 22:00:03.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:03.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:03.337][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-12-28 22:00:03.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-12-28 22:00:03.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:03.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:03.379][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-12-28 22:00:03.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-12-28 22:00:03.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:03.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:03.384][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-12-28 22:00:03.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-12-28 22:00:03.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:03.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:03.388][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-12-28 22:00:03.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-12-28 22:00:03.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:03.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:03.392][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-12-28 22:00:03.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-12-28 22:00:03.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:03.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-12-28 22:00:03.399][biodb::testThat]
biodb.INFO [2022-12-28 22:00:03.400][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2022-12-28 22:00:03.401][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-12-28 22:00:03.402][biodb::testThat]
biodb.INFO [2022-12-28 22:00:03.407][biodb::testThat]
biodb.INFO [2022-12-28 22:00:03.409][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2022-12-28 22:00:03.410][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-12-28 22:00:03.411][biodb::testThat]
biodb.INFO [2022-12-28 22:00:03.415][biodb::testThat]
biodb.INFO [2022-12-28 22:00:03.416][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2022-12-28 22:00:03.417][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-12-28 22:00:03.418][biodb::testThat]
biodb.DEBUG[2022-12-28 22:00:03.422][function(conn, opt)] Trying to download "https://www.lipidmaps.org/data?LMID=LMFA00000001".
biodb.DEBUG[2022-12-28 22:00:04.110][getUrlContent] Use base::url() for downloading content of URL https://www.lipidmaps.org/data?LMID=LMFA00000001.
biodb.INFO [2022-12-28 22:00:04.946][biodb::testThat]
biodb.INFO [2022-12-28 22:00:04.948][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2022-12-28 22:00:04.950][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-12-28 22:00:04.951][biodb::testThat]
biodb.TRACE[2022-12-28 22:00:04.966][ef$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:04.968][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:04.969][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:04.971][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:04.973][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:04.974][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:04.976][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:04.978][ef$get] fields variable is a list.
biodb.INFO [2022-12-28 22:00:04.981][biodb::testThat]
biodb.INFO [2022-12-28 22:00:04.983][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2022-12-28 22:00:04.984][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-12-28 22:00:04.986][biodb::testThat]
biodb.TRACE[2022-12-28 22:00:05.014][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:05.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:05.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:05.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:05.022][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:05.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:05.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:05.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:05.028][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:05.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:05.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:05.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-12-28 22:00:05.162][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride".
biodb.DEBUG[2022-12-28 22:00:05.167][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-12-28 22:00:05.169][cch$loadFileContent] Trying to load 1 files from cache: [1]: "e8702bf6dc5a5afd048f747914fd7a6a".
biodb.TRACE[2022-12-28 22:00:05.171][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-12-28 22:00:05.174][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.content".
biodb.DEBUG[2022-12-28 22:00:05.296][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride".
biodb.DEBUG[2022-12-28 22:00:05.301][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-12-28 22:00:05.303][cch$loadFileContent] Trying to load 1 files from cache: [1]: "e8702bf6dc5a5afd048f747914fd7a6a".
biodb.TRACE[2022-12-28 22:00:05.305][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-12-28 22:00:05.308][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.content".
biodb.TRACE[2022-12-28 22:00:05.334][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-12-28 22:00:05.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-12-28 22:00:05.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:05.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:05.358][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-12-28 22:00:05.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-12-28 22:00:05.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:05.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:05.381][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:05.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:05.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:05.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:05.387][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:05.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:05.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:05.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:05.391][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:05.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:05.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:05.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:05.395][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:05.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:05.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:05.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:05.399][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:05.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:05.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:05.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-12-28 22:00:05.443][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=1e-06".
biodb.DEBUG[2022-12-28 22:00:05.453][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-12-28 22:00:05.455][cch$loadFileContent] Trying to load 1 files from cache: [1]: "304383a7dc8c451be84009e31d831359".
biodb.TRACE[2022-12-28 22:00:05.457][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-12-28 22:00:05.704][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/304383a7dc8c451be84009e31d831359.content".
biodb.DEBUG[2022-12-28 22:00:06.985][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride&ExactMass=626.491025&ExactMassOffSet=1e-06".
biodb.DEBUG[2022-12-28 22:00:06.989][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-12-28 22:00:06.991][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7f71825f1888a7b29e4b8407502d21e3".
biodb.TRACE[2022-12-28 22:00:06.992][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-12-28 22:00:06.995][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/7f71825f1888a7b29e4b8407502d21e3.content".
biodb.DEBUG[2022-12-28 22:00:07.189][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride&ExactMass=626.491026&ExactMassOffSet=2e-06".
biodb.DEBUG[2022-12-28 22:00:07.193][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-12-28 22:00:07.194][cch$loadFileContent] Trying to load 1 files from cache: [1]: "fd41c675dd237f33cdaafcbb15058c54".
biodb.TRACE[2022-12-28 22:00:07.196][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-12-28 22:00:07.199][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/fd41c675dd237f33cdaafcbb15058c54.content".
biodb.TRACE[2022-12-28 22:00:07.221][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2022-12-28 22:00:07.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2022-12-28 22:00:07.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:07.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-12-28 22:00:07.238][biodb::testThat]
biodb.INFO [2022-12-28 22:00:07.239][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2022-12-28 22:00:07.240][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-12-28 22:00:07.241][biodb::testThat]
biodb.TRACE[2022-12-28 22:00:07.245][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-12-28 22:00:07.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-12-28 22:00:07.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:07.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:07.249][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-12-28 22:00:07.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-12-28 22:00:07.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:07.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:07.253][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:07.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:07.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:07.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:07.258][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:07.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:07.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:07.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:07.262][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:07.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:07.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:07.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:07.266][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:07.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:07.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:07.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-12-28 22:00:07.278][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-12-28 22:00:07.279][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:07.280][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:07.286][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:07.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:07.288][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:07.289][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[2022-12-28 22:00:07.329][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.01".
biodb.DEBUG[2022-12-28 22:00:07.333][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-12-28 22:00:07.334][cch$loadFileContent] Trying to load 1 files from cache: [1]: "f4acf835cb23946f08f684530aa686a3".
biodb.TRACE[2022-12-28 22:00:07.336][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-12-28 22:00:07.610][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f4acf835cb23946f08f684530aa686a3.content".
biodb.DEBUG[2022-12-28 22:00:08.773][private$loadEntries] Creating entries from ids [2]: "LMFA00000002, LMFA00000003".
biodb.DEBUG[2022-12-28 22:00:08.819][conn$getEntryContent] Get LIPID MAPS Structure entry content(s) for 2 id(s)...
biodb.TRACE[2022-12-28 22:00:08.822][cch$loadFileContent] Trying to load 2 files from cache: [2]: "LMFA00000002, LMFA00000003".
biodb.TRACE[2022-12-28 22:00:08.824][cch$loadFileContent] file.exist = [2]: "TRUE, TRUE".
biodb.TRACE[2022-12-28 22:00:08.839][loadFileContents] Loaded 2 files from cache: [2]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA00000002.tsv, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA00000003.tsv".
biodb.DEBUG[2022-12-28 22:00:08.841][conn$getEntryContent] 2 LIPID MAPS Structure entry content(s) loaded from cache.
biodb.DEBUG[2022-12-28 22:00:08.859][self$createEntryFromContent] Creating LIPID MAPS Structure entries from 2 content(s).
biodb.DEBUG[2022-12-28 22:00:08.861][self$createEntryFromContent] Parsing 2 LIPID MAPS Structure entries.
biodb.DEBUG[2022-12-28 22:00:08.863][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-12-28 22:00:08.864][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:08.865][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:08.873][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:08.874][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:08.875][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:08.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-12-28 22:00:08.881][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:08.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:08.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:08.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:08.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:08.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:08.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:08.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:08.896][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-12-28 22:00:08.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-12-28 22:00:08.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:08.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:08.901][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-12-28 22:00:08.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-12-28 22:00:08.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:08.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:08.909][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-12-28 22:00:08.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-12-28 22:00:08.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:08.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:08.913][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-12-28 22:00:08.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-12-28 22:00:08.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:08.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:08.918][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:08.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:08.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:08.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:08.922][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:08.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:08.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:08.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:08.930][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:08.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:08.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:08.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:08.934][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:08.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:08.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:08.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:08.942][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-12-28 22:00:08.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:08.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:08.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:08.946][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-12-28 22:00:08.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:08.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:08.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:08.954][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-12-28 22:00:08.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-12-28 22:00:08.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:08.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:08.959][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-12-28 22:00:08.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-12-28 22:00:08.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:08.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:08.968][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:08.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:08.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:08.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:08.973][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:08.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:08.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:08.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:08.982][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-12-28 22:00:08.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:08.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:08.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:08.987][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2022-12-28 22:00:08.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:08.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:08.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:08.992][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:08.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:08.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:08.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:08.997][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:08.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:08.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.002][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-12-28 22:00:09.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:09.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.011][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.016][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:09.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:09.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.026][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.031][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:09.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:09.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.036][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:09.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:09.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.041][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:09.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:09.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-12-28 22:00:09.049][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-12-28 22:00:09.051][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:09.052][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:09.059][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:09.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:09.061][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:09.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-12-28 22:00:09.067][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:09.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:09.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:09.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:09.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.081][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-12-28 22:00:09.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-12-28 22:00:09.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.086][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-12-28 22:00:09.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-12-28 22:00:09.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.091][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-12-28 22:00:09.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-12-28 22:00:09.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.096][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:09.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:09.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.101][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:09.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:09.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.110][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:09.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:09.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.146][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:09.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:09.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.153][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-12-28 22:00:09.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:09.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.158][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-12-28 22:00:09.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:09.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.165][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-12-28 22:00:09.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-12-28 22:00:09.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.170][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-12-28 22:00:09.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-12-28 22:00:09.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.177][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:09.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:09.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.182][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:09.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:09.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.189][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-12-28 22:00:09.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:09.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.194][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2022-12-28 22:00:09.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:09.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.198][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:09.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:09.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.202][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:09.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:09.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.207][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-12-28 22:00:09.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:09.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.215][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.219][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:09.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:09.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.228][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.232][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:09.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:09.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.236][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:09.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:09.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:09.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:09.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:09.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:09.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.252][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:09.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:09.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:09.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:09.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:09.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:09.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:09.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:09.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.269][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:09.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:09.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-12-28 22:00:09.273][self$createEntryFromContent] Accession numbers: LMFA00000002, LMFA00000003.
biodb.DEBUG[2022-12-28 22:00:09.281][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2022-12-28 22:00:09.283][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-12-28 22:00:09.284][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:09.285][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:09.291][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:09.292][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:09.293][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:09.294][FUN] Functions in observer BiodbConfig: [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[2022-12-28 22:00:09.295][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.300][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.305][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:09.306][private$selectFields]
biodb.TRACE[2022-12-28 22:00:09.307][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-12-28 22:00:09.308][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-12-28 22:00:09.309][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:09.310][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.312][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.313][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.314][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.315][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.316][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.317][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.318][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.319][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:09.320][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:09.321][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.323][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.324][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.325][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.326][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2022-12-28 22:00:09.327][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.331][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.336][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.348][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2022-12-28 22:00:09.350][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-12-28 22:00:09.351][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:09.352][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:09.358][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:09.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:09.360][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:09.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-12-28 22:00:09.362][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.367][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.371][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:09.372][private$selectFields]
biodb.TRACE[2022-12-28 22:00:09.373][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-12-28 22:00:09.374][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-12-28 22:00:09.375][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:09.376][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.378][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.379][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.380][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.381][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.382][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.383][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.384][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.385][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:09.386][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:09.387][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.388][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.389][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.390][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.392][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2022-12-28 22:00:09.393][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.397][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.401][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.406][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2022-12-28 22:00:09.407][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-12-28 22:00:09.408][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:09.409][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:09.415][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:09.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:09.417][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:09.418][FUN] Functions in observer BiodbConfig: [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[2022-12-28 22:00:09.420][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.424][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.428][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:09.430][private$selectFields]
biodb.TRACE[2022-12-28 22:00:09.431][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-12-28 22:00:09.432][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-12-28 22:00:09.433][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:09.434][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.435][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.436][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.437][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.438][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.439][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.440][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.441][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.442][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:09.443][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:09.444][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.446][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.447][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.448][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.449][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2022-12-28 22:00:09.450][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.455][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.466][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:09.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.471][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2022-12-28 22:00:09.472][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2022-12-28 22:00:09.473][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2022-12-28 22:00:09.482][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2022-12-28 22:00:09.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2022-12-28 22:00:09.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-12-28 22:00:09.487][biodb::testThat]
biodb.INFO [2022-12-28 22:00:09.488][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2022-12-28 22:00:09.490][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-12-28 22:00:09.491][biodb::testThat]
biodb.TRACE[2022-12-28 22:00:09.494][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-12-28 22:00:09.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-12-28 22:00:09.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.498][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-12-28 22:00:09.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-12-28 22:00:09.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.503][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:09.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:09.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.507][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:09.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:09.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.511][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:09.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:09.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:09.516][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:09.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:09.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:09.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-12-28 22:00:09.564][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-12-28 22:00:09.566][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:09.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:09.572][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:09.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:09.574][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:09.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:09.617][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.009397365375".
biodb.DEBUG[2022-12-28 22:00:09.620][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-12-28 22:00:09.622][cch$loadFileContent] Trying to load 1 files from cache: [1]: "5652f5994fce967a05a065a71bac3ed6".
biodb.TRACE[2022-12-28 22:00:09.623][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-12-28 22:00:09.882][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/5652f5994fce967a05a065a71bac3ed6.content".
biodb.DEBUG[2022-12-28 22:00:11.379][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2022-12-28 22:00:11.400][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-12-28 22:00:11.401][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:11.402][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:11.408][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:11.409][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:11.410][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:11.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-12-28 22:00:11.421][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:11.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:11.426][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:11.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:11.444][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:11.446][private$selectFields]
biodb.TRACE[2022-12-28 22:00:11.447][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-12-28 22:00:11.448][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-12-28 22:00:11.449][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:11.450][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.451][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.452][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:11.453][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:11.454][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.455][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.456][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:11.457][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:11.458][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:11.466][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:11.467][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.468][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.469][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:11.470][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:11.471][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2022-12-28 22:00:11.473][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:11.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:11.477][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:11.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:11.481][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:11.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:11.486][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2022-12-28 22:00:11.487][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-12-28 22:00:11.488][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:11.489][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:11.494][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:11.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:11.496][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:11.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-12-28 22:00:11.499][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:11.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:11.503][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:11.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:11.507][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:11.508][private$selectFields]
biodb.TRACE[2022-12-28 22:00:11.509][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-12-28 22:00:11.510][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-12-28 22:00:11.511][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:11.512][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.513][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.514][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:11.515][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:11.517][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.518][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.519][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:11.520][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:11.521][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:11.522][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:11.523][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.524][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.525][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:11.526][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:11.527][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2022-12-28 22:00:11.528][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:11.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:11.532][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:11.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:11.537][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:11.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:11.541][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2022-12-28 22:00:11.542][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-12-28 22:00:11.543][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:11.544][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:11.550][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:11.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:11.552][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:11.553][FUN] Functions in observer BiodbConfig: [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[2022-12-28 22:00:11.554][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:11.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:11.559][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:11.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:11.563][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:11.564][private$selectFields]
biodb.TRACE[2022-12-28 22:00:11.565][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-12-28 22:00:11.566][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-12-28 22:00:11.567][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:11.568][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.569][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.570][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:11.571][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:11.572][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.573][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.574][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:11.575][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:11.576][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:11.577][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:11.578][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.579][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.580][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:11.581][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:11.582][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2022-12-28 22:00:11.584][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:11.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:11.588][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:11.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:11.592][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:11.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:11.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:11.597][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2022-12-28 22:00:11.598][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2022-12-28 22:00:11.599][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2022-12-28 22:00:11.607][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2022-12-28 22:00:11.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2022-12-28 22:00:11.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:11.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-12-28 22:00:11.622][biodb::testThat]
biodb.INFO [2022-12-28 22:00:11.624][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2022-12-28 22:00:11.625][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-12-28 22:00:11.626][biodb::testThat]
biodb.TRACE[2022-12-28 22:00:11.629][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-12-28 22:00:11.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-12-28 22:00:11.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:11.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:11.634][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-12-28 22:00:11.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-12-28 22:00:11.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:11.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:11.638][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:11.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:11.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:11.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:11.642][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:11.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:11.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:11.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:11.647][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:11.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:11.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:11.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:11.651][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:11.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:11.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:11.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-12-28 22:00:11.664][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-12-28 22:00:11.665][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:11.666][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:11.672][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:11.673][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:11.674][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:11.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:11.715][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.01".
biodb.DEBUG[2022-12-28 22:00:11.719][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-12-28 22:00:11.720][cch$loadFileContent] Trying to load 1 files from cache: [1]: "f4acf835cb23946f08f684530aa686a3".
biodb.TRACE[2022-12-28 22:00:11.722][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-12-28 22:00:11.838][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f4acf835cb23946f08f684530aa686a3.content".
biodb.DEBUG[2022-12-28 22:00:12.991][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2022-12-28 22:00:12.993][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-12-28 22:00:12.994][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:12.995][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:13.001][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:13.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:13.004][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:13.005][FUN] Functions in observer BiodbConfig: [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[2022-12-28 22:00:13.006][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.011][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.015][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:13.016][private$selectFields]
biodb.TRACE[2022-12-28 22:00:13.017][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-12-28 22:00:13.018][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-12-28 22:00:13.019][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:13.021][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.022][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.023][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.024][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.025][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.026][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.027][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.028][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.029][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:13.031][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:13.032][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.033][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.035][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.036][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.037][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2022-12-28 22:00:13.038][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.043][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.048][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.055][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2022-12-28 22:00:13.056][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-12-28 22:00:13.057][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:13.058][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:13.064][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:13.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:13.066][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:13.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-12-28 22:00:13.069][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.073][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.077][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:13.078][private$selectFields]
biodb.TRACE[2022-12-28 22:00:13.079][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-12-28 22:00:13.080][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-12-28 22:00:13.081][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:13.082][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.083][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.084][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.085][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.086][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.088][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.089][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.090][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.091][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:13.092][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:13.093][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.094][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.095][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.096][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.097][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2022-12-28 22:00:13.098][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.102][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.106][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.111][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2022-12-28 22:00:13.112][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-12-28 22:00:13.113][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:13.114][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:13.120][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:13.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:13.122][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:13.123][FUN] Functions in observer BiodbConfig: [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[2022-12-28 22:00:13.124][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.129][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.133][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:13.134][private$selectFields]
biodb.TRACE[2022-12-28 22:00:13.135][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-12-28 22:00:13.136][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-12-28 22:00:13.137][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:13.138][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.140][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.141][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.142][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.143][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.144][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.145][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.146][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.147][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:13.148][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:13.149][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.150][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.152][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.153][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.154][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2022-12-28 22:00:13.155][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.159][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.164][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.168][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2022-12-28 22:00:13.169][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2022-12-28 22:00:13.170][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2022-12-28 22:00:13.192][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2022-12-28 22:00:13.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2022-12-28 22:00:13.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-12-28 22:00:13.198][biodb::testThat]
biodb.INFO [2022-12-28 22:00:13.199][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2022-12-28 22:00:13.201][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-12-28 22:00:13.202][biodb::testThat]
biodb.DEBUG[2022-12-28 22:00:13.204][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2022-12-28 22:00:13.205][conn$getEntryContent] Get LIPID MAPS Structure entry content(s) for 1 id(s)...
biodb.TRACE[2022-12-28 22:00:13.207][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2022-12-28 22:00:13.208][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-12-28 22:00:13.210][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/WRONGA.tsv".
biodb.DEBUG[2022-12-28 22:00:13.211][conn$getEntryContent] 1 LIPID MAPS Structure entry content(s) loaded from cache.
biodb.DEBUG[2022-12-28 22:00:13.225][self$createEntryFromContent] Creating LIPID MAPS Structure entries from 1 content(s).
biodb.DEBUG[2022-12-28 22:00:13.226][self$createEntryFromContent] Parsing 1 LIPID MAPS Structure entries.
biodb.DEBUG[2022-12-28 22:00:13.228][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-12-28 22:00:13.229][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:13.230][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:13.236][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:13.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:13.238][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:13.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-12-28 22:00:13.241][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.245][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:13.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:13.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.254][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:13.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:13.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.258][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:13.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:13.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:13.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:13.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.267][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:13.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:13.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.271][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:13.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:13.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-12-28 22:00:13.276][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2022-12-28 22:00:13.277][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2022-12-28 22:00:13.284][biodb::testThat]
biodb.INFO [2022-12-28 22:00:13.285][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2022-12-28 22:00:13.287][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-12-28 22:00:13.288][biodb::testThat]
biodb.DEBUG[2022-12-28 22:00:13.295][function(conn, opt)] IDS: [4]: "WRONGB, LMFA00000001, LMFA00000002, LMFA08040013"
biodb.DEBUG[2022-12-28 22:00:13.297][private$loadEntries] Creating entries from ids [2]: "WRONGB, LMFA08040013".
biodb.DEBUG[2022-12-28 22:00:13.298][conn$getEntryContent] Get LIPID MAPS Structure entry content(s) for 2 id(s)...
biodb.TRACE[2022-12-28 22:00:13.299][cch$loadFileContent] Trying to load 2 files from cache: [2]: "WRONGB, LMFA08040013".
biodb.TRACE[2022-12-28 22:00:13.301][cch$loadFileContent] file.exist = [2]: "TRUE, TRUE".
biodb.TRACE[2022-12-28 22:00:13.312][loadFileContents] Loaded 2 files from cache: [2]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/WRONGB.tsv, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA08040013.tsv".
biodb.DEBUG[2022-12-28 22:00:13.314][conn$getEntryContent] 2 LIPID MAPS Structure entry content(s) loaded from cache.
biodb.DEBUG[2022-12-28 22:00:13.352][self$createEntryFromContent] Creating LIPID MAPS Structure entries from 2 content(s).
biodb.DEBUG[2022-12-28 22:00:13.354][self$createEntryFromContent] Parsing 2 LIPID MAPS Structure entries.
biodb.DEBUG[2022-12-28 22:00:13.357][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-12-28 22:00:13.358][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:13.360][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:13.369][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:13.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:13.372][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:13.373][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.TRACE[2022-12-28 22:00:13.376][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.383][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:13.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:13.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-12-28 22:00:13.396][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-12-28 22:00:13.397][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:13.399][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:13.407][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:13.409][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:13.411][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:13.412][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.TRACE[2022-12-28 22:00:13.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:13.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:13.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.425][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:13.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:13.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.436][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-12-28 22:00:13.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-12-28 22:00:13.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.443][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-12-28 22:00:13.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-12-28 22:00:13.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.454][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-12-28 22:00:13.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-12-28 22:00:13.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.460][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-12-28 22:00:13.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-12-28 22:00:13.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.471][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-12-28 22:00:13.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-12-28 22:00:13.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.478][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-12-28 22:00:13.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-12-28 22:00:13.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.489][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:13.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:13.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.495][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:13.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:13.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.506][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:13.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:13.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.513][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:13.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:13.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.524][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-12-28 22:00:13.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:13.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.531][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-12-28 22:00:13.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:13.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.542][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-12-28 22:00:13.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-12-28 22:00:13.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.548][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-12-28 22:00:13.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-12-28 22:00:13.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.560][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:13.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:13.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.566][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:13.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:13.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.577][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-12-28 22:00:13.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:13.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.581][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2022-12-28 22:00:13.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:13.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.586][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:13.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:13.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.590][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:13.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:13.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.595][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-12-28 22:00:13.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:13.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.602][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:13.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:13.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.606][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:13.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:13.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.611][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:13.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:13.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.615][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:13.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:13.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.619][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:13.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:13.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.626][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.630][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:13.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:13.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.639][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:13.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.644][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:13.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:13.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.648][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:13.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:13.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.652][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:13.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:13.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.659][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:13.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:13.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.663][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:13.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:13.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:13.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:13.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:13.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:13.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.676][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:13.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:13.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.681][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:13.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:13.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:13.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:13.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:13.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:13.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:13.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:13.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-12-28 22:00:13.693][self$createEntryFromContent] Accession numbers: NA, LMFA08040013.
biodb.DEBUG[2022-12-28 22:00:13.694][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2022-12-28 22:00:13.695][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2022-12-28 22:00:13.709][biodb::testThat]
biodb.INFO [2022-12-28 22:00:13.710][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2022-12-28 22:00:13.711][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-12-28 22:00:13.712][biodb::testThat]
biodb.INFO [2022-12-28 22:00:13.744][biodb::testThat]
biodb.INFO [2022-12-28 22:00:13.745][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2022-12-28 22:00:13.746][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-12-28 22:00:13.747][biodb::testThat]
biodb.INFO [2022-12-28 22:00:13.758][biodb::testThat]
biodb.INFO [2022-12-28 22:00:13.759][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2022-12-28 22:00:13.760][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-12-28 22:00:13.761][biodb::testThat]
biodb.DEBUG[2022-12-28 22:00:13.765][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV".
biodb.DEBUG[2022-12-28 22:00:13.768][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-12-28 22:00:13.770][cch$loadFileContent] Trying to load 1 files from cache: [1]: "13e15253cf65619ae7a700f5534f6030".
biodb.TRACE[2022-12-28 22:00:13.771][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-12-28 22:00:14.066][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/13e15253cf65619ae7a700f5534f6030.content".
biodb.TRACE[2022-12-28 22:00:15.550][ef$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:15.552][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:15.553][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:15.554][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:15.555][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:15.556][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:15.557][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:15.558][ef$get] fields variable is a list.
biodb.INFO [2022-12-28 22:00:15.560][biodb::testThat]
biodb.INFO [2022-12-28 22:00:15.561][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2022-12-28 22:00:15.562][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-12-28 22:00:15.563][biodb::testThat]
biodb.ERROR[2022-12-28 22:00:15.576][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2022-12-28 22:00:15.588][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2022-12-28 22:00:15.595][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2022-12-28 22:00:15.597][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector lipidmaps.structure from the request scheduler
biodb.INFO [2022-12-28 22:00:15.598][self$deleteConn] Connector "lipidmaps.structure" deleted.
biodb.DEBUG[2022-12-28 22:00:15.599][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-12-28 22:00:15.600][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:15.601][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:15.602][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:15.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:15.604][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:15.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2022-12-28 22:00:15.614][biodb::testContext]
biodb.INFO [2022-12-28 22:00:15.615][biodb::testContext] ********************************************************************************
biodb.INFO [2022-12-28 22:00:15.616][biodb::testContext] Test context - Web services tests
biodb.INFO [2022-12-28 22:00:15.618][biodb::testContext] ********************************************************************************
biodb.INFO [2022-12-28 22:00:15.619][biodb::testContext]
biodb.INFO [2022-12-28 22:00:15.624][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.7.0.
biodb.DEBUG[2022-12-28 22:00:15.626][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.17-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2022-12-28 22:00:15.631][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-12-28 22:00:15.632][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-12-28 22:00:15.634][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-12-28 22:00:15.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:15.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:15.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:15.637][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-12-28 22:00:15.639][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-12-28 22:00:15.640][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:15.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:15.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:15.643][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-12-28 22:00:15.644][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-12-28 22:00:15.645][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:15.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:15.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:15.648][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-12-28 22:00:15.649][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-12-28 22:00:15.650][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-12-28 22:00:15.651][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:15.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:15.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:15.654][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-12-28 22:00:15.655][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-12-28 22:00:15.656][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-12-28 22:00:15.657][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:15.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:15.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:15.659][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-12-28 22:00:15.661][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-12-28 22:00:15.661][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:15.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:15.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:15.664][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-12-28 22:00:15.665][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-12-28 22:00:15.666][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-12-28 22:00:15.667][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:15.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:15.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:15.670][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-12-28 22:00:15.671][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-12-28 22:00:15.672][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:15.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:15.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:15.675][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-12-28 22:00:15.676][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-12-28 22:00:15.677][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-12-28 22:00:15.678][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:15.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:15.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:15.681][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-12-28 22:00:15.682][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-12-28 22:00:15.683][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-12-28 22:00:15.684][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-12-28 22:00:15.685][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-12-28 22:00:15.686][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-12-28 22:00:15.687][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:15.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:15.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:15.690][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-12-28 22:00:15.691][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-12-28 22:00:15.692][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:15.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:15.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:15.695][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-12-28 22:00:15.696][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-12-28 22:00:15.697][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:15.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:15.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:15.700][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-12-28 22:00:15.701][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-12-28 22:00:15.702][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:15.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:15.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:15.705][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-12-28 22:00:15.706][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-12-28 22:00:15.707][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:15.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:15.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:15.710][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-12-28 22:00:15.711][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-12-28 22:00:15.712][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:15.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:15.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:15.715][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-12-28 22:00:15.716][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-12-28 22:00:15.720][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2022-12-28 22:00:15.721][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:15.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:15.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:15.724][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-12-28 22:00:15.725][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-12-28 22:00:15.726][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-12-28 22:00:15.727][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:15.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:15.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:15.730][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-12-28 22:00:15.732][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:15.733][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2022-12-28 22:00:15.734][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:15.735][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-12-28 22:00:15.736][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:15.737][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-12-28 22:00:15.738][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:15.739][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-12-28 22:00:15.741][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-12-28 22:00:15.742][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-12-28 22:00:15.743][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:15.744][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-12-28 22:00:15.745][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-12-28 22:00:15.746][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:15.747][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:15.748][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-12-28 22:00:15.748][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-12-28 22:00:15.748][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-12-28 22:00:15.748][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-12-28 22:00:15.748][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-12-28 22:00:15.749][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-12-28 22:00:15.750][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-12-28 22:00:15.751][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-12-28 22:00:15.752][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-12-28 22:00:15.753][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-12-28 22:00:15.754][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-12-28 22:00:15.755][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-12-28 22:00:15.756][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:15.757][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-12-28 22:00:15.758][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-12-28 22:00:15.759][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:15.760][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:15.762][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-12-28 22:00:15.764][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:15.765][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-12-28 22:00:15.766][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:15.767][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-12-28 22:00:15.768][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:15.769][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-12-28 22:00:15.770][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:15.771][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-12-28 22:00:15.772][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-12-28 22:00:15.774][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-12-28 22:00:15.775][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:15.776][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-12-28 22:00:15.777][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-12-28 22:00:15.778][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:15.779][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:15.780][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-12-28 22:00:15.780][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-12-28 22:00:15.780][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-12-28 22:00:15.780][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-12-28 22:00:15.780][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-12-28 22:00:15.781][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-12-28 22:00:15.782][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-12-28 22:00:15.783][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-12-28 22:00:15.784][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-12-28 22:00:15.785][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-12-28 22:00:15.786][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-12-28 22:00:15.787][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-12-28 22:00:15.788][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:15.789][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-12-28 22:00:15.790][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-12-28 22:00:15.791][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:15.792][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:15.794][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-12-28 22:00:15.795][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:15.797][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2022-12-28 22:00:15.798][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:15.799][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-12-28 22:00:15.800][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:15.801][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-12-28 22:00:15.802][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:15.803][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-12-28 22:00:15.804][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-12-28 22:00:15.805][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-12-28 22:00:15.806][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:15.807][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-12-28 22:00:15.808][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-12-28 22:00:15.809][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:15.810][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:15.811][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:15.813][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-12-28 22:00:15.814][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-12-28 22:00:15.815][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-12-28 22:00:15.816][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-12-28 22:00:15.817][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-12-28 22:00:15.818][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-12-28 22:00:15.819][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-12-28 22:00:15.820][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:15.821][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-12-28 22:00:15.822][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-12-28 22:00:15.823][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:15.824][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:15.825][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-12-28 22:00:15.827][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:15.828][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-12-28 22:00:15.829][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:15.830][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-12-28 22:00:15.832][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:15.833][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-12-28 22:00:15.834][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:15.858][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-12-28 22:00:15.859][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-12-28 22:00:15.861][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-12-28 22:00:15.862][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:15.863][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-12-28 22:00:15.864][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-12-28 22:00:15.865][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:15.866][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:15.867][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:15.868][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-12-28 22:00:15.869][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-12-28 22:00:15.870][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-12-28 22:00:15.871][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-12-28 22:00:15.872][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-12-28 22:00:15.873][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-12-28 22:00:15.874][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-12-28 22:00:15.875][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:15.876][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-12-28 22:00:15.877][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-12-28 22:00:15.878][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:15.879][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:15.881][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-12-28 22:00:15.882][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:15.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:15.884][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:15.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:15.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:15.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:15.887][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:15.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:15.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:15.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:15.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:15.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:15.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:15.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:15.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:15.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:15.897][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:15.898][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:15.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:15.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:15.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:15.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:15.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:15.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:15.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:15.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:15.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:15.907][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:15.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:15.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:15.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:15.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:15.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:15.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:15.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:15.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:15.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:15.916][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:15.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:15.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:15.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:15.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:15.921][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:15.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:15.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:15.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:15.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:15.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:15.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:15.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:15.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:15.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:15.930][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:15.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:15.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:15.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:15.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:15.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:15.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:15.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:15.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:15.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:15.939][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:15.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:15.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:15.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:15.943][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:15.944][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:15.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:15.946][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:15.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:15.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:15.949][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:15.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:15.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:15.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:15.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:15.953][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:15.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:15.955][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:15.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:15.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:15.958][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:15.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:15.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:15.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:15.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:15.963][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-12-28 22:00:15.964][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-12-28 22:00:15.966][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-12-28 22:00:15.967][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-12-28 22:00:15.968][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-12-28 22:00:15.970][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-12-28 22:00:15.971][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-12-28 22:00:15.972][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-12-28 22:00:15.974][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-12-28 22:00:15.975][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-12-28 22:00:15.976][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-12-28 22:00:15.978][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-12-28 22:00:15.979][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-12-28 22:00:15.981][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-12-28 22:00:15.982][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-12-28 22:00:15.983][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-12-28 22:00:15.985][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-12-28 22:00:15.986][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-12-28 22:00:15.987][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-12-28 22:00:15.989][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-12-28 22:00:15.990][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-12-28 22:00:15.992][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-12-28 22:00:15.993][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-12-28 22:00:15.994][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-12-28 22:00:15.996][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-12-28 22:00:15.997][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-12-28 22:00:15.998][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-12-28 22:00:16.000][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-12-28 22:00:16.001][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-12-28 22:00:16.003][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-12-28 22:00:16.004][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-12-28 22:00:16.005][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-12-28 22:00:16.007][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-12-28 22:00:16.008][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-12-28 22:00:16.009][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-12-28 22:00:16.011][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-12-28 22:00:16.012][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-12-28 22:00:16.013][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-12-28 22:00:16.015][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-12-28 22:00:16.016][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-12-28 22:00:16.017][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-12-28 22:00:16.019][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-12-28 22:00:16.020][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-12-28 22:00:16.021][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-12-28 22:00:16.023][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-12-28 22:00:16.024][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-12-28 22:00:16.025][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-12-28 22:00:16.027][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-12-28 22:00:16.028][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-12-28 22:00:16.029][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-12-28 22:00:16.031][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-12-28 22:00:16.032][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-12-28 22:00:16.033][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-12-28 22:00:16.035][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-12-28 22:00:16.036][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-12-28 22:00:16.037][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-12-28 22:00:16.039][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-12-28 22:00:16.040][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-12-28 22:00:16.041][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-12-28 22:00:16.043][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-12-28 22:00:16.044][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-12-28 22:00:16.045][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-12-28 22:00:16.047][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-12-28 22:00:16.048][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-12-28 22:00:16.050][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-12-28 22:00:16.051][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-12-28 22:00:16.052][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-12-28 22:00:16.054][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-12-28 22:00:16.055][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-12-28 22:00:16.057][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-12-28 22:00:16.058][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-12-28 22:00:16.059][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-12-28 22:00:16.061][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-12-28 22:00:16.062][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-12-28 22:00:16.063][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-12-28 22:00:16.065][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-12-28 22:00:16.066][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-12-28 22:00:16.068][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-12-28 22:00:16.069][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-12-28 22:00:16.070][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-12-28 22:00:16.072][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-12-28 22:00:16.073][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-12-28 22:00:16.075][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-12-28 22:00:16.076][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-12-28 22:00:16.078][initialize] This is biodb version 1.7.0.
biodb.DEBUG[2022-12-28 22:00:16.079][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-12-28 22:00:16.080][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:16.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:16.082][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:16.083][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:16.084][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:16.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:16.086][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:16.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:16.087][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:16.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:16.089][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:16.090][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:16.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:16.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:16.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:16.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:16.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:16.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:16.097][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:16.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:16.098][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:16.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:16.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:16.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:16.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:16.103][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:16.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:16.105][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:16.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:16.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:16.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:16.108][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[2022-12-28 22:00:16.109][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:16.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:16.111][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:16.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:16.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:16.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:16.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:16.116][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:16.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:16.117][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:16.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:16.119][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:16.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:16.121][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[2022-12-28 22:00:16.122][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:16.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:16.124][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:16.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:16.125][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:16.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:16.127][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[2022-12-28 22:00:16.128][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:16.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:16.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:16.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:16.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:16.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:16.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:16.135][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:16.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:16.137][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:16.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:16.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:16.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:16.141][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:16.142][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:16.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:16.151][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:16.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:16.153][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:16.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:16.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:16.155][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:16.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:16.157][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:16.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:16.159][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:16.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:16.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:16.162][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:16.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:16.164][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:16.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:16.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:16.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:16.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:16.168][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:16.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:16.170][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:16.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:16.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:16.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:16.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:16.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:16.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:16.176][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:16.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:16.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:16.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:16.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:16.181][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:16.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:16.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:16.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:16.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:16.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:16.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:16.187][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:16.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:16.189][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:16.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:16.191][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:16.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:16.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:16.194][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:16.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:16.195][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:16.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:16.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:16.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:16.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:16.201][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.17-bioc/R/library/biodbLipidmaps/definitions.yml".
biodb.DEBUG[2022-12-28 22:00:16.203][self$getDbsInfo()$define] Define connector lipidmaps.structure.
biodb.DEBUG[2022-12-28 22:00:16.204][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:16.205][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2022-12-28 22:00:16.206][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:16.207][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-12-28 22:00:16.208][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:16.209][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-12-28 22:00:16.210][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:16.211][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-12-28 22:00:16.212][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-12-28 22:00:16.213][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-12-28 22:00:16.214][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:16.215][self$setPropertyValue] Setting property "name" to "LIPID MAPS Structure".
biodb.DEBUG[2022-12-28 22:00:16.216][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-12-28 22:00:16.217][self$setPropertyValue] Setting property "parsing.expr" to "LM_ID".
biodb.DEBUG[2022-12-28 22:00:16.217][self$setPropertyValue] Setting property "parsing.expr" to "CHEBI_ID".
biodb.DEBUG[2022-12-28 22:00:16.217][self$setPropertyValue] Setting property "parsing.expr" to "HMDBID".
biodb.DEBUG[2022-12-28 22:00:16.217][self$setPropertyValue] Setting property "parsing.expr" to "KEGG_ID".
biodb.DEBUG[2022-12-28 22:00:16.217][self$setPropertyValue] Setting property "parsing.expr" to "PUBCHEM_COMPOUND_ID".
biodb.DEBUG[2022-12-28 22:00:16.217][self$setPropertyValue] Setting property "parsing.expr" to "SYSTEMATIC_NAME".
biodb.DEBUG[2022-12-28 22:00:16.217][self$setPropertyValue] Setting property "parsing.expr" to "MASS".
biodb.DEBUG[2022-12-28 22:00:16.217][self$setPropertyValue] Setting property "parsing.expr" to "FORMULA".
biodb.DEBUG[2022-12-28 22:00:16.217][self$setPropertyValue] Setting property "parsing.expr" to "COMMON_NAME".
biodb.DEBUG[2022-12-28 22:00:16.218][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:16.219][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-12-28 22:00:16.219][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-12-28 22:00:16.220][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-12-28 22:00:16.221][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-12-28 22:00:16.222][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-12-28 22:00:16.223][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-12-28 22:00:16.224][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-12-28 22:00:16.225][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-12-28 22:00:16.226][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-12-28 22:00:16.227][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/data/".
biodb.DEBUG[2022-12-28 22:00:16.227][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/databases/lmsd/".
biodb.DEBUG[2022-12-28 22:00:16.228][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-12-28 22:00:16.229][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-12-28 22:00:16.230][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:16.231][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:16.232][self$getEntryFields()$define] Define field lipidmaps.structure.id.
biodb.DEBUG[2022-12-28 22:00:16.234][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-12-28 22:00:16.237][initialize] Initialize connector lipidmaps.structure.
biodb.DEBUG[2022-12-28 22:00:16.238][initialize] Register connector lipidmaps.structure with the request scheduler
biodb.DEBUG[2022-12-28 22:00:16.239][private$bdb$getRequestScheduler()$re ...] Register connector lipidmaps.structure.
biodb.DEBUG[2022-12-28 22:00:16.240][private$addConnectorRules] Create new rule for URL "www.lipidmaps.org" of connector "lipidmaps.structure".
biodb.DEBUG[2022-12-28 22:00:16.242][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2022-12-28 22:00:16.243][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2022-12-28 22:00:16.244][rule$addConnector] Connector "lipidmaps.structure" is already listed in rule "www.lipidmaps.org".
biodb.DEBUG[2022-12-28 22:00:16.245][biodb$getFactory()$createConn] Creating new connector lipidmaps.structure for database class lipidmaps.structure .
biodb.INFO [2022-12-28 22:00:16.247][biodb::testThat]
biodb.INFO [2022-12-28 22:00:16.248][biodb::testThat] Running test function  test_wsLmsdRecord_searchByName  (" wsLmsdRecord() can search by name. ").
biodb.INFO [2022-12-28 22:00:16.249][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-12-28 22:00:16.250][biodb::testThat]
biodb.DEBUG[2022-12-28 22:00:16.253][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=anhydride".
biodb.DEBUG[2022-12-28 22:00:16.258][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-12-28 22:00:16.259][cch$loadFileContent] Trying to load 1 files from cache: [1]: "cfd52aa1c2e3525a5defd7b7e8bd8bb8".
biodb.TRACE[2022-12-28 22:00:16.260][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-12-28 22:00:16.268][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/cfd52aa1c2e3525a5defd7b7e8bd8bb8.content".
biodb.DEBUG[2022-12-28 22:00:16.277][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=fatty".
biodb.DEBUG[2022-12-28 22:00:16.280][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-12-28 22:00:16.282][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4ae22a112f570b93d2a956448ab71bd0".
biodb.TRACE[2022-12-28 22:00:16.285][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-12-28 22:00:16.299][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/4ae22a112f570b93d2a956448ab71bd0.content".
biodb.INFO [2022-12-28 22:00:16.307][biodb::testThat]
biodb.INFO [2022-12-28 22:00:16.309][biodb::testThat] Running test function  test_wsLmsdRecord  (" Test web service wsLmsdRecord. ").
biodb.INFO [2022-12-28 22:00:16.310][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-12-28 22:00:16.311][biodb::testThat]
biodb.INFO [2022-12-28 22:00:16.332][biodb::testThat]
biodb.INFO [2022-12-28 22:00:16.334][biodb::testThat] Running test function  test_wsLmsdSearch  (" Test web service wsLmsdSearch. ").
biodb.INFO [2022-12-28 22:00:16.335][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-12-28 22:00:16.336][biodb::testThat]
biodb.DEBUG[2022-12-28 22:00:16.339][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&LMID=LMSL02000001".
biodb.DEBUG[2022-12-28 22:00:16.342][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-12-28 22:00:16.344][cch$loadFileContent] Trying to load 1 files from cache: [1]: "cb051dd8deddba61124ac06645747646".
biodb.TRACE[2022-12-28 22:00:16.345][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-12-28 22:00:16.353][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/cb051dd8deddba61124ac06645747646.content".
biodb.DEBUG[2022-12-28 22:00:16.357][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&LMID=LMSL02000001".
biodb.DEBUG[2022-12-28 22:00:16.360][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-12-28 22:00:16.361][cch$loadFileContent] Trying to load 1 files from cache: [1]: "cb051dd8deddba61124ac06645747646".
biodb.TRACE[2022-12-28 22:00:16.363][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-12-28 22:00:16.365][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/cb051dd8deddba61124ac06645747646.content".
biodb.DEBUG[2022-12-28 22:00:16.369][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&LMID=LMSL02000001".
biodb.DEBUG[2022-12-28 22:00:16.372][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-12-28 22:00:16.374][cch$loadFileContent] Trying to load 1 files from cache: [1]: "9edcc233717c530cf0cbf5f73b9c3fc7".
biodb.TRACE[2022-12-28 22:00:16.375][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-12-28 22:00:16.379][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/9edcc233717c530cf0cbf5f73b9c3fc7.content".
biodb.DEBUG[2022-12-28 22:00:16.384][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&Name=acid".
biodb.DEBUG[2022-12-28 22:00:16.387][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-12-28 22:00:16.388][cch$loadFileContent] Trying to load 1 files from cache: [1]: "be9130a77f849b73da505cd10830451e".
biodb.TRACE[2022-12-28 22:00:16.390][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-12-28 22:00:16.448][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/be9130a77f849b73da505cd10830451e.content".
biodb.DEBUG[2022-12-28 22:00:16.602][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&Name=acid&ExactMass=60.8&ExactMassOffSet=6".
biodb.DEBUG[2022-12-28 22:00:16.606][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-12-28 22:00:16.607][cch$loadFileContent] Trying to load 1 files from cache: [1]: "6821b039f49696a2484834eb67daa971".
biodb.TRACE[2022-12-28 22:00:16.609][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-12-28 22:00:16.658][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/6821b039f49696a2484834eb67daa971.content".
biodb.INFO [2022-12-28 22:00:16.811][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2022-12-28 22:00:16.812][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector lipidmaps.structure from the request scheduler
biodb.INFO [2022-12-28 22:00:16.813][self$deleteConn] Connector "lipidmaps.structure" deleted.
biodb.DEBUG[2022-12-28 22:00:16.814][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-12-28 22:00:16.815][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:16.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:16.817][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:16.818][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:16.819][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:16.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2022-12-28 22:00:16.824][biodb::testContext]
biodb.INFO [2022-12-28 22:00:16.825][biodb::testContext] ********************************************************************************
biodb.INFO [2022-12-28 22:00:16.826][biodb::testContext] Test context - Some other custom tests
biodb.INFO [2022-12-28 22:00:16.827][biodb::testContext] ********************************************************************************
biodb.INFO [2022-12-28 22:00:16.828][biodb::testContext]
biodb.INFO [2022-12-28 22:00:16.834][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.7.0.
biodb.DEBUG[2022-12-28 22:00:16.836][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.17-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2022-12-28 22:00:16.841][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-12-28 22:00:16.842][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-12-28 22:00:16.843][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-12-28 22:00:16.844][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:16.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:16.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:16.849][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-12-28 22:00:16.851][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-12-28 22:00:16.852][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:16.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:16.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:16.857][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-12-28 22:00:16.859][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-12-28 22:00:16.860][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:16.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:16.863][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:16.864][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-12-28 22:00:16.866][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-12-28 22:00:16.868][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-12-28 22:00:16.869][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:16.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:16.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:16.873][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-12-28 22:00:16.874][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-12-28 22:00:16.876][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-12-28 22:00:16.877][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:16.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:16.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:16.881][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-12-28 22:00:16.883][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-12-28 22:00:16.884][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:16.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:16.886][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[2022-12-28 22:00:16.888][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-12-28 22:00:16.889][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-12-28 22:00:16.891][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-12-28 22:00:16.892][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:16.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:16.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:16.896][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-12-28 22:00:16.897][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-12-28 22:00:16.899][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:16.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:16.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:16.902][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-12-28 22:00:16.903][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-12-28 22:00:16.904][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-12-28 22:00:16.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:16.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:16.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:16.920][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-12-28 22:00:16.921][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-12-28 22:00:16.922][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-12-28 22:00:16.923][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-12-28 22:00:16.924][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-12-28 22:00:16.925][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-12-28 22:00:16.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:16.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:16.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:16.929][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-12-28 22:00:16.930][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-12-28 22:00:16.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:16.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:16.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:16.935][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-12-28 22:00:16.936][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-12-28 22:00:16.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:16.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:16.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:16.940][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-12-28 22:00:16.941][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-12-28 22:00:16.942][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:16.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:16.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:16.945][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-12-28 22:00:16.946][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-12-28 22:00:16.947][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:16.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:16.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:16.950][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-12-28 22:00:16.951][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-12-28 22:00:16.952][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:16.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:16.953][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:16.954][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-12-28 22:00:16.955][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-12-28 22:00:16.959][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2022-12-28 22:00:16.960][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:16.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:16.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:16.963][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-12-28 22:00:16.964][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-12-28 22:00:16.965][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-12-28 22:00:16.966][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:16.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:16.968][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:16.969][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-12-28 22:00:16.971][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:16.972][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2022-12-28 22:00:16.973][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:16.974][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-12-28 22:00:16.975][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:16.976][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-12-28 22:00:16.977][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:16.978][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-12-28 22:00:16.979][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-12-28 22:00:16.980][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-12-28 22:00:16.981][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:16.982][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-12-28 22:00:16.983][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-12-28 22:00:16.984][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:16.985][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:16.986][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-12-28 22:00:16.986][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-12-28 22:00:16.986][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-12-28 22:00:16.986][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-12-28 22:00:16.986][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-12-28 22:00:16.987][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-12-28 22:00:16.988][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-12-28 22:00:16.989][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-12-28 22:00:16.991][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-12-28 22:00:16.992][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-12-28 22:00:16.993][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-12-28 22:00:16.994][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-12-28 22:00:16.995][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:16.996][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-12-28 22:00:16.996][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-12-28 22:00:16.997][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:16.999][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:17.000][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-12-28 22:00:17.001][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:17.003][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-12-28 22:00:17.004][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:17.005][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-12-28 22:00:17.006][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:17.007][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-12-28 22:00:17.008][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:17.009][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-12-28 22:00:17.010][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-12-28 22:00:17.011][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-12-28 22:00:17.013][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:17.014][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-12-28 22:00:17.015][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-12-28 22:00:17.016][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:17.017][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:17.018][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-12-28 22:00:17.018][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-12-28 22:00:17.018][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-12-28 22:00:17.018][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-12-28 22:00:17.018][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-12-28 22:00:17.019][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-12-28 22:00:17.020][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-12-28 22:00:17.021][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-12-28 22:00:17.022][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-12-28 22:00:17.023][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-12-28 22:00:17.024][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-12-28 22:00:17.025][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-12-28 22:00:17.026][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:17.027][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-12-28 22:00:17.028][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-12-28 22:00:17.029][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:17.030][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:17.032][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-12-28 22:00:17.033][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:17.034][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2022-12-28 22:00:17.036][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:17.037][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-12-28 22:00:17.038][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:17.039][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-12-28 22:00:17.040][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:17.041][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-12-28 22:00:17.042][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-12-28 22:00:17.043][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-12-28 22:00:17.044][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:17.045][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-12-28 22:00:17.046][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-12-28 22:00:17.047][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:17.048][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:17.049][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:17.050][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-12-28 22:00:17.051][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-12-28 22:00:17.052][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-12-28 22:00:17.053][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-12-28 22:00:17.054][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-12-28 22:00:17.055][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-12-28 22:00:17.056][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-12-28 22:00:17.058][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:17.059][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-12-28 22:00:17.060][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-12-28 22:00:17.061][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:17.062][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:17.063][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-12-28 22:00:17.065][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:17.066][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-12-28 22:00:17.067][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:17.068][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-12-28 22:00:17.069][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:17.070][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-12-28 22:00:17.071][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:17.072][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-12-28 22:00:17.073][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-12-28 22:00:17.074][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-12-28 22:00:17.075][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:17.077][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-12-28 22:00:17.078][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-12-28 22:00:17.079][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:17.080][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:17.081][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:17.082][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-12-28 22:00:17.083][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-12-28 22:00:17.084][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-12-28 22:00:17.085][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-12-28 22:00:17.086][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-12-28 22:00:17.087][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-12-28 22:00:17.088][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-12-28 22:00:17.089][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:17.090][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-12-28 22:00:17.091][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-12-28 22:00:17.092][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:17.093][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:17.094][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-12-28 22:00:17.095][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:17.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:17.097][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:17.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:17.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:17.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:17.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:17.102][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:17.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:17.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:17.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:17.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:17.106][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:17.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:17.108][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:17.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:17.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:17.111][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:17.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:17.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:17.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:17.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:17.116][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:17.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:17.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:17.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:17.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:17.121][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:17.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:17.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:17.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:17.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:17.126][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:17.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:17.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:17.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:17.130][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[2022-12-28 22:00:17.131][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:17.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:17.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:17.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:17.135][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[2022-12-28 22:00:17.136][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:17.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:17.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:17.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:17.141][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:17.142][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:17.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:17.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:17.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:17.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:17.146][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:17.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:17.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:17.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:17.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:17.151][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:17.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:17.153][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:17.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:17.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:17.156][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:17.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:17.158][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:17.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:17.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:17.161][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:17.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:17.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:17.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:17.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:17.165][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:17.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:17.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:17.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:17.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:17.170][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:17.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:17.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:17.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:17.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:17.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:17.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:17.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:17.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:17.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:17.180][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-12-28 22:00:17.181][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-12-28 22:00:17.183][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-12-28 22:00:17.184][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-12-28 22:00:17.186][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-12-28 22:00:17.187][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-12-28 22:00:17.188][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-12-28 22:00:17.190][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-12-28 22:00:17.191][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-12-28 22:00:17.192][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-12-28 22:00:17.194][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-12-28 22:00:17.195][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-12-28 22:00:17.197][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-12-28 22:00:17.198][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-12-28 22:00:17.199][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-12-28 22:00:17.201][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-12-28 22:00:17.202][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-12-28 22:00:17.203][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-12-28 22:00:17.205][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-12-28 22:00:17.206][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-12-28 22:00:17.208][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-12-28 22:00:17.209][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-12-28 22:00:17.210][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-12-28 22:00:17.212][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-12-28 22:00:17.213][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-12-28 22:00:17.214][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-12-28 22:00:17.216][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-12-28 22:00:17.224][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-12-28 22:00:17.226][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-12-28 22:00:17.227][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-12-28 22:00:17.229][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-12-28 22:00:17.230][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-12-28 22:00:17.231][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-12-28 22:00:17.233][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-12-28 22:00:17.234][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-12-28 22:00:17.236][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-12-28 22:00:17.237][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-12-28 22:00:17.238][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-12-28 22:00:17.240][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-12-28 22:00:17.241][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-12-28 22:00:17.242][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-12-28 22:00:17.244][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-12-28 22:00:17.245][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-12-28 22:00:17.247][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-12-28 22:00:17.248][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-12-28 22:00:17.250][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-12-28 22:00:17.251][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-12-28 22:00:17.252][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-12-28 22:00:17.254][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-12-28 22:00:17.255][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-12-28 22:00:17.256][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-12-28 22:00:17.258][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-12-28 22:00:17.259][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-12-28 22:00:17.261][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-12-28 22:00:17.262][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-12-28 22:00:17.263][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-12-28 22:00:17.265][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-12-28 22:00:17.266][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-12-28 22:00:17.267][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-12-28 22:00:17.269][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-12-28 22:00:17.270][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-12-28 22:00:17.271][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-12-28 22:00:17.273][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-12-28 22:00:17.274][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-12-28 22:00:17.275][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-12-28 22:00:17.277][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-12-28 22:00:17.278][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-12-28 22:00:17.280][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-12-28 22:00:17.281][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-12-28 22:00:17.282][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-12-28 22:00:17.284][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-12-28 22:00:17.285][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-12-28 22:00:17.286][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-12-28 22:00:17.288][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-12-28 22:00:17.289][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-12-28 22:00:17.290][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-12-28 22:00:17.292][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-12-28 22:00:17.293][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-12-28 22:00:17.295][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-12-28 22:00:17.296][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-12-28 22:00:17.297][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-12-28 22:00:17.299][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-12-28 22:00:17.300][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-12-28 22:00:17.302][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-12-28 22:00:17.304][initialize] This is biodb version 1.7.0.
biodb.DEBUG[2022-12-28 22:00:17.305][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-12-28 22:00:17.306][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:17.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:17.308][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:17.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:17.310][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:17.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:17.312][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:17.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:17.314][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:17.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:17.316][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:17.317][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:17.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:17.318][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:17.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:17.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:17.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:17.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:17.323][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:17.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:17.325][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:17.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:17.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:17.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:17.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:17.330][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:17.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:17.332][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:17.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:17.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:17.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:17.336][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:17.337][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:17.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:17.339][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:17.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:17.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:17.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:17.342][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:17.343][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:17.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:17.345][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:17.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:17.347][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:17.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:17.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:17.350][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:17.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:17.352][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:17.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:17.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:17.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:17.356][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[2022-12-28 22:00:17.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:17.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:17.358][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:17.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:17.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:17.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:17.362][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[2022-12-28 22:00:17.363][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:17.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:17.365][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:17.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:17.367][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:17.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:17.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:17.370][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:17.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:17.372][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:17.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:17.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:17.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:17.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:17.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:17.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:17.379][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:17.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:17.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:17.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:17.383][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[2022-12-28 22:00:17.384][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:17.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:17.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:17.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:17.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:17.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:17.390][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[2022-12-28 22:00:17.391][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:17.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:17.393][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:17.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:17.395][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:17.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:17.397][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[2022-12-28 22:00:17.398][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:17.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:17.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:17.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:17.401][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:17.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:17.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:17.404][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:17.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:17.406][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:17.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:17.408][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:17.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:17.410][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[2022-12-28 22:00:17.411][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:17.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:17.412][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:17.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:17.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:17.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:17.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:17.417][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-12-28 22:00:17.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:17.419][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:17.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:17.421][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:17.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:17.423][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-12-28 22:00:17.425][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.17-bioc/R/library/biodbLipidmaps/definitions.yml".
biodb.DEBUG[2022-12-28 22:00:17.426][self$getDbsInfo()$define] Define connector lipidmaps.structure.
biodb.DEBUG[2022-12-28 22:00:17.428][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:17.429][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2022-12-28 22:00:17.430][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:17.431][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-12-28 22:00:17.432][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:17.433][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-12-28 22:00:17.434][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:17.435][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-12-28 22:00:17.436][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-12-28 22:00:17.437][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-12-28 22:00:17.438][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:17.440][self$setPropertyValue] Setting property "name" to "LIPID MAPS Structure".
biodb.DEBUG[2022-12-28 22:00:17.441][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-12-28 22:00:17.442][self$setPropertyValue] Setting property "parsing.expr" to "LM_ID".
biodb.DEBUG[2022-12-28 22:00:17.442][self$setPropertyValue] Setting property "parsing.expr" to "CHEBI_ID".
biodb.DEBUG[2022-12-28 22:00:17.442][self$setPropertyValue] Setting property "parsing.expr" to "HMDBID".
biodb.DEBUG[2022-12-28 22:00:17.442][self$setPropertyValue] Setting property "parsing.expr" to "KEGG_ID".
biodb.DEBUG[2022-12-28 22:00:17.442][self$setPropertyValue] Setting property "parsing.expr" to "PUBCHEM_COMPOUND_ID".
biodb.DEBUG[2022-12-28 22:00:17.442][self$setPropertyValue] Setting property "parsing.expr" to "SYSTEMATIC_NAME".
biodb.DEBUG[2022-12-28 22:00:17.442][self$setPropertyValue] Setting property "parsing.expr" to "MASS".
biodb.DEBUG[2022-12-28 22:00:17.442][self$setPropertyValue] Setting property "parsing.expr" to "FORMULA".
biodb.DEBUG[2022-12-28 22:00:17.442][self$setPropertyValue] Setting property "parsing.expr" to "COMMON_NAME".
biodb.DEBUG[2022-12-28 22:00:17.443][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2022-12-28 22:00:17.444][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-12-28 22:00:17.444][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-12-28 22:00:17.445][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-12-28 22:00:17.446][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-12-28 22:00:17.447][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-12-28 22:00:17.448][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-12-28 22:00:17.449][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-12-28 22:00:17.450][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-12-28 22:00:17.451][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-12-28 22:00:17.452][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/data/".
biodb.DEBUG[2022-12-28 22:00:17.452][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/databases/lmsd/".
biodb.DEBUG[2022-12-28 22:00:17.453][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-12-28 22:00:17.454][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-12-28 22:00:17.455][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2022-12-28 22:00:17.456][self$setPropertyValue]
biodb.DEBUG[2022-12-28 22:00:17.457][self$getEntryFields()$define] Define field lipidmaps.structure.id.
biodb.DEBUG[2022-12-28 22:00:17.458][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-12-28 22:00:17.461][initialize] Initialize connector lipidmaps.structure.
biodb.DEBUG[2022-12-28 22:00:17.462][initialize] Register connector lipidmaps.structure with the request scheduler
biodb.DEBUG[2022-12-28 22:00:17.463][private$bdb$getRequestScheduler()$re ...] Register connector lipidmaps.structure.
biodb.DEBUG[2022-12-28 22:00:17.465][private$addConnectorRules] Create new rule for URL "www.lipidmaps.org" of connector "lipidmaps.structure".
biodb.DEBUG[2022-12-28 22:00:17.466][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2022-12-28 22:00:17.467][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2022-12-28 22:00:17.469][rule$addConnector] Connector "lipidmaps.structure" is already listed in rule "www.lipidmaps.org".
biodb.DEBUG[2022-12-28 22:00:17.470][biodb$getFactory()$createConn] Creating new connector lipidmaps.structure for database class lipidmaps.structure .
biodb.INFO [2022-12-28 22:00:17.471][biodb::testThat]
biodb.INFO [2022-12-28 22:00:17.472][biodb::testThat] Running test function  test_noOtherConnNeeded  (" No other connector is needed. ").
biodb.INFO [2022-12-28 22:00:17.473][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-12-28 22:00:17.474][biodb::testThat]
biodb.DEBUG[2022-12-28 22:00:17.478][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV".
biodb.DEBUG[2022-12-28 22:00:17.482][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-12-28 22:00:17.484][cch$loadFileContent] Trying to load 1 files from cache: [1]: "13e15253cf65619ae7a700f5534f6030".
biodb.TRACE[2022-12-28 22:00:17.485][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-12-28 22:00:17.577][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/13e15253cf65619ae7a700f5534f6030.content".
biodb.DEBUG[2022-12-28 22:00:18.743][private$loadEntries] Creating entries from ids [2]: "LMFA00000001, LMFA00000002".
biodb.DEBUG[2022-12-28 22:00:18.744][conn$getEntryContent] Get LIPID MAPS Structure entry content(s) for 2 id(s)...
biodb.TRACE[2022-12-28 22:00:18.746][cch$loadFileContent] Trying to load 2 files from cache: [2]: "LMFA00000001, LMFA00000002".
biodb.TRACE[2022-12-28 22:00:18.747][cch$loadFileContent] file.exist = [2]: "TRUE, TRUE".
biodb.TRACE[2022-12-28 22:00:18.750][loadFileContents] Loaded 2 files from cache: [2]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA00000001.tsv, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA00000002.tsv".
biodb.DEBUG[2022-12-28 22:00:18.751][conn$getEntryContent] 2 LIPID MAPS Structure entry content(s) loaded from cache.
biodb.DEBUG[2022-12-28 22:00:18.764][self$createEntryFromContent] Creating LIPID MAPS Structure entries from 2 content(s).
biodb.DEBUG[2022-12-28 22:00:18.765][self$createEntryFromContent] Parsing 2 LIPID MAPS Structure entries.
biodb.DEBUG[2022-12-28 22:00:18.767][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-12-28 22:00:18.768][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:18.769][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:18.775][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:18.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:18.778][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:18.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-12-28 22:00:18.783][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:18.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:18.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:18.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:18.788][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:18.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:18.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:18.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:18.796][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-12-28 22:00:18.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-12-28 22:00:18.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:18.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:18.801][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-12-28 22:00:18.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-12-28 22:00:18.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:18.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:18.808][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-12-28 22:00:18.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-12-28 22:00:18.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:18.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:18.813][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-12-28 22:00:18.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-12-28 22:00:18.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:18.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:18.817][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:18.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:18.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:18.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:18.821][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:18.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:18.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:18.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:18.829][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:18.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:18.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:18.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:18.833][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:18.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:18.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:18.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:18.841][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-12-28 22:00:18.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:18.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:18.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:18.845][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-12-28 22:00:18.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:18.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:18.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:18.852][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-12-28 22:00:18.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-12-28 22:00:18.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:18.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:18.857][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-12-28 22:00:18.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-12-28 22:00:18.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:18.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:18.864][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:18.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:18.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:18.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:18.869][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:18.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:18.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:18.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:18.876][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-12-28 22:00:18.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:18.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:18.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:18.880][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2022-12-28 22:00:18.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:18.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:18.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:18.885][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:18.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:18.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:18.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:18.889][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:18.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:18.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:18.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:18.894][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-12-28 22:00:18.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:18.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:18.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:18.902][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:19.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:19.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.008][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:19.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:19.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.012][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:19.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:19.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.016][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:19.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:19.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.020][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:19.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:19.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.028][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:19.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:19.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.032][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:19.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:19.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.037][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:19.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:19.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.041][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:19.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:19.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.045][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:19.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:19.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.049][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:19.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:19.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:19.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:19.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-12-28 22:00:19.061][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-12-28 22:00:19.062][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:19.063][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:19.069][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:19.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:19.072][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:19.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-12-28 22:00:19.076][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:19.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:19.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:19.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:19.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-12-28 22:00:19.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-12-28 22:00:19.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.093][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-12-28 22:00:19.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-12-28 22:00:19.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.100][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-12-28 22:00:19.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-12-28 22:00:19.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.104][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-12-28 22:00:19.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-12-28 22:00:19.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.109][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:19.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:19.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.113][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:19.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:19.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.121][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:19.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:19.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.125][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:19.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:19.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.133][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-12-28 22:00:19.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:19.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.137][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-12-28 22:00:19.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:19.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.148][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-12-28 22:00:19.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-12-28 22:00:19.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.164][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-12-28 22:00:19.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-12-28 22:00:19.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.172][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:19.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:19.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.176][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:19.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:19.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.183][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-12-28 22:00:19.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:19.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.188][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2022-12-28 22:00:19.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:19.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.192][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:19.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:19.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.196][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:19.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:19.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.200][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-12-28 22:00:19.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:19.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.208][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:19.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:19.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.212][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:19.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:19.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.216][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:19.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:19.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.220][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:19.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:19.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.224][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:19.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:19.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.229][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:19.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:19.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.233][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:19.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:19.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:19.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:19.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.244][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:19.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:19.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:19.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:19.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:19.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:19.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:19.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:19.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:19.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:19.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-12-28 22:00:19.265][self$createEntryFromContent] Accession numbers: LMFA00000001, LMFA00000002.
biodb.DEBUG[2022-12-28 22:00:19.267][conn$getBiodb()$entriesToDataframe] 2 entrie(s) to convert in data frame.
biodb.DEBUG[2022-12-28 22:00:19.269][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-12-28 22:00:19.269][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:19.271][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:19.276][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:19.277][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:19.278][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:19.279][FUN] Functions in observer BiodbConfig: [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[2022-12-28 22:00:19.282][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-12-28 22:00:19.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-12-28 22:00:19.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.286][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-12-28 22:00:19.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-12-28 22:00:19.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.290][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-12-28 22:00:19.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-12-28 22:00:19.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.295][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-12-28 22:00:19.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-12-28 22:00:19.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.299][private$selectFields] Fields none
biodb.TRACE[2022-12-28 22:00:19.300][private$selectFields]
biodb.TRACE[2022-12-28 22:00:19.301][private$selectFields] Fields is null: TRUE
biodb.TRACE[2022-12-28 22:00:19.302][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-12-28 22:00:19.303][private$selectFields] Fields [8]: "accession, chebi.id, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, name, lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:19.304][ef$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:19.305][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:19.306][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.307][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.308][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-12-28 22:00:19.309][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-12-28 22:00:19.310][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.311][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.312][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:19.314][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:19.315][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.316][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.317][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:19.318][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:19.319][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.320][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.321][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:19.322][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:19.323][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.324][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.325][ef$get] Asked field names are: formula.
biodb.TRACE[2022-12-28 22:00:19.326][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-12-28 22:00:19.327][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.328][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.329][ef$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:19.330][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:19.331][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.332][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.333][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:19.334][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:19.335][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.336][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.337][ef$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:19.338][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:19.339][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.340][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.341][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-12-28 22:00:19.342][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-12-28 22:00:19.343][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.344][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.345][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:19.347][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:19.348][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.349][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.350][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:19.351][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:19.352][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.353][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.354][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:19.355][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:19.356][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.357][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.358][ef$get] Asked field names are: formula.
biodb.TRACE[2022-12-28 22:00:19.359][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-12-28 22:00:19.360][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.361][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.362][ef$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:19.363][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:19.364][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.365][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.366][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:19.367][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:19.368][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.369][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.370][private$selectFields] Fields [8]: "accession, chebi.id, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, name, lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:19.371][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, name, lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:19.372][ef$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:19.373][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:19.374][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.375][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.377][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-12-28 22:00:19.378][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-12-28 22:00:19.379][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.380][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.381][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:19.382][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:19.383][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.384][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.385][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:19.386][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:19.387][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.388][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.389][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:19.390][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:19.391][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.392][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.393][ef$get] Asked field names are: formula.
biodb.TRACE[2022-12-28 22:00:19.394][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-12-28 22:00:19.395][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.396][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.397][ef$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:19.398][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:19.399][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.400][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.401][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:19.402][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:19.403][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.404][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.405][private$organizeFieldsByGroups] Groups [2]: "c("accession", "chebi.id", "ncbi.pubchem.comp.id", "comp.iupac.name.syst", "monoisotopic.mass", "formula", "name", "lipidmaps.structure.id"), list()"
biodb.TRACE[2022-12-28 22:00:19.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:19.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:19.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:19.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:19.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:19.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:19.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.419][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-12-28 22:00:19.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-12-28 22:00:19.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.424][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-12-28 22:00:19.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-12-28 22:00:19.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.428][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-12-28 22:00:19.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-12-28 22:00:19.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.432][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:19.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:19.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.437][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:19.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:19.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.441][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:19.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:19.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.445][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:19.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:19.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.449][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:19.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:19.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.454][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:19.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:19.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.467][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:19.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:19.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.472][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:19.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:19.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.476][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:19.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:19.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.480][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-12-28 22:00:19.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-12-28 22:00:19.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.485][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-12-28 22:00:19.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-12-28 22:00:19.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.489][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-12-28 22:00:19.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-12-28 22:00:19.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.493][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:19.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:19.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.498][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:19.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:19.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.502][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:19.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:19.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.506][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:19.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:19.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.511][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:19.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:19.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.515][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:19.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:19.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.524][private$entriesToListOfDataframes] Entry converted to data frame: [1, 8]: [accession, chebi.id, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, ...] [LMFA00000001, 178363, 10930192, 2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride, 626.491025, ...].
biodb.DEBUG[2022-12-28 22:00:19.525][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-12-28 22:00:19.526][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:19.527][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:19.533][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:19.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:19.535][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:19.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-12-28 22:00:19.538][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-12-28 22:00:19.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-12-28 22:00:19.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.542][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-12-28 22:00:19.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-12-28 22:00:19.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.546][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-12-28 22:00:19.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-12-28 22:00:19.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.551][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-12-28 22:00:19.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-12-28 22:00:19.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.555][private$selectFields] Fields none
biodb.TRACE[2022-12-28 22:00:19.556][private$selectFields]
biodb.TRACE[2022-12-28 22:00:19.557][private$selectFields] Fields is null: TRUE
biodb.TRACE[2022-12-28 22:00:19.558][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-12-28 22:00:19.559][private$selectFields] Fields [8]: "accession, chebi.id, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, name, lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:19.560][ef$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:19.561][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:19.562][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.563][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.565][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-12-28 22:00:19.566][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-12-28 22:00:19.567][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.568][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.570][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:19.571][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:19.572][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.573][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.574][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:19.575][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:19.576][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.578][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.579][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:19.580][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:19.581][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.582][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.583][ef$get] Asked field names are: formula.
biodb.TRACE[2022-12-28 22:00:19.584][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-12-28 22:00:19.585][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.586][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.587][ef$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:19.588][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:19.589][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.590][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.591][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:19.592][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:19.593][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.594][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.596][ef$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:19.597][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:19.598][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.599][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.600][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-12-28 22:00:19.601][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-12-28 22:00:19.602][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.603][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.606][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:19.607][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:19.609][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.610][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.611][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:19.613][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:19.614][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.615][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.616][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:19.617][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:19.618][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.619][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.620][ef$get] Asked field names are: formula.
biodb.TRACE[2022-12-28 22:00:19.621][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-12-28 22:00:19.622][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.623][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.624][ef$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:19.625][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:19.626][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.627][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.628][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:19.629][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:19.630][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.631][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.632][private$selectFields] Fields [8]: "accession, chebi.id, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, name, lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:19.633][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, name, lipidmaps.structure.id"
biodb.TRACE[2022-12-28 22:00:19.634][ef$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:19.636][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:19.637][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.638][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.639][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-12-28 22:00:19.640][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-12-28 22:00:19.641][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.642][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.643][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:19.644][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:19.645][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.646][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.647][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:19.648][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:19.649][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.650][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.651][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:19.652][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:19.653][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.654][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.655][ef$get] Asked field names are: formula.
biodb.TRACE[2022-12-28 22:00:19.656][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-12-28 22:00:19.657][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.658][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.659][ef$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:19.660][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:19.661][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.662][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.663][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:19.664][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:19.665][ef$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.666][ef$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.667][private$organizeFieldsByGroups] Groups [2]: "c("accession", "chebi.id", "ncbi.pubchem.comp.id", "comp.iupac.name.syst", "monoisotopic.mass", "formula", "name", "lipidmaps.structure.id"), list()"
biodb.TRACE[2022-12-28 22:00:19.669][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:19.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:19.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.673][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:19.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:19.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-12-28 22:00:19.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-12-28 22:00:19.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.681][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-12-28 22:00:19.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-12-28 22:00:19.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.685][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-12-28 22:00:19.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-12-28 22:00:19.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.690][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-12-28 22:00:19.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-12-28 22:00:19.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.694][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:19.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:19.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.698][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:19.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:19.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.703][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:19.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-12-28 22:00:19.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.707][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:19.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:19.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.711][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:19.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:19.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.715][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:19.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-12-28 22:00:19.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.720][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:19.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:19.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.724][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:19.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:19.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.728][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:19.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-12-28 22:00:19.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.733][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-12-28 22:00:19.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-12-28 22:00:19.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.737][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-12-28 22:00:19.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-12-28 22:00:19.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.741][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-12-28 22:00:19.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-12-28 22:00:19.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.745][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:19.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:19.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.750][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:19.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:19.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.754][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-12-28 22:00:19.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-12-28 22:00:19.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.758][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:19.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:19.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.773][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:19.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:19.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.778][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:19.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-12-28 22:00:19.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-12-28 22:00:19.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-12-28 22:00:19.787][private$entriesToListOfDataframes] Entry converted to data frame: [1, 8]: [accession, chebi.id, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, ...] [LMFA00000002, 137783, 42607281, N-(3S-hydroxydecanoyl)-L-serine, 275.173274, ...].
biodb.DEBUG[2022-12-28 22:00:19.789][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.DEBUG[2022-12-28 22:00:19.790][conn$getBiodb()$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.INFO [2022-12-28 22:00:19.794][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2022-12-28 22:00:19.795][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector lipidmaps.structure from the request scheduler
biodb.INFO [2022-12-28 22:00:19.797][self$deleteConn] Connector "lipidmaps.structure" deleted.
biodb.DEBUG[2022-12-28 22:00:19.798][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-12-28 22:00:19.799][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-12-28 22:00:19.800][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-12-28 22:00:19.802][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-12-28 22:00:19.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-12-28 22:00:19.804][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-12-28 22:00:19.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 163 ]
> 
> proc.time()
   user  system elapsed 
  17.95    0.70   20.79

Example timings

biodbLipidmaps.Rcheck/biodbLipidmaps-Ex.timings

nameusersystemelapsed
LipidmapsStructureConn2.471.033.51
LipidmapsStructureEntry0.610.030.65