Back to Multiple platform build/check report for BioC 3.14
A[B]CDEFGHIJKLMNOPQRSTUVWXYZ

This page was generated on 2022-04-13 12:05:07 -0400 (Wed, 13 Apr 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.1.3 (2022-03-10) -- "One Push-Up" 4324
tokay2Windows Server 2012 R2 Standardx644.1.3 (2022-03-10) -- "One Push-Up" 4077
machv2macOS 10.14.6 Mojavex86_644.1.3 (2022-03-10) -- "One Push-Up" 4137
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 nebbiolo2


To the developers/maintainers of the biodbLipidmaps package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbLipidmaps.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 179/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbLipidmaps 1.0.1  (landing page)
Pierrick Roger
Snapshot Date: 2022-04-12 01:55:07 -0400 (Tue, 12 Apr 2022)
git_url: https://git.bioconductor.org/packages/biodbLipidmaps
git_branch: RELEASE_3_14
git_last_commit: bda9e29
git_last_commit_date: 2021-10-27 16:13:11 -0400 (Wed, 27 Oct 2021)
nebbiolo2Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: biodbLipidmaps
Version: 1.0.1
Command: /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:biodbLipidmaps.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings biodbLipidmaps_1.0.1.tar.gz
StartedAt: 2022-04-12 06:34:39 -0400 (Tue, 12 Apr 2022)
EndedAt: 2022-04-12 06:37:33 -0400 (Tue, 12 Apr 2022)
EllapsedTime: 173.9 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbLipidmaps.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:biodbLipidmaps.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings biodbLipidmaps_1.0.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.14-bioc/meat/biodbLipidmaps.Rcheck’
* using R version 4.1.3 (2022-03-10)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbLipidmaps/DESCRIPTION’ ... OK
* this is package ‘biodbLipidmaps’ version ‘1.0.1’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘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:
###
###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD INSTALL biodbLipidmaps
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.14-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 version 4.1.3 (2022-03-10) -- "One Push-Up"
Copyright (C) 2022 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (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 [2022-04-12 06:35:20.321][biodb::testContext] 
biodb.INFO [2022-04-12 06:35:20.323][biodb::testContext] ********************************************************************************
biodb.INFO [2022-04-12 06:35:20.324][biodb::testContext] Test context - Generic tests
biodb.INFO [2022-04-12 06:35:20.325][biodb::testContext] ********************************************************************************
biodb.INFO [2022-04-12 06:35:20.326][biodb::testContext] 
biodb.INFO [2022-04-12 06:35:20.349][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.2.2.
biodb.DEBUG[2022-04-12 06:35:20.350][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.14-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2022-04-12 06:35:20.358][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-04-12 06:35:20.359][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-04-12 06:35:20.361][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-04-12 06:35:20.361][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.364][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-04-12 06:35:20.390][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-04-12 06:35:20.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.395][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-04-12 06:35:20.396][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-04-12 06:35:20.397][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.400][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-04-12 06:35:20.401][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-04-12 06:35:20.402][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-04-12 06:35:20.403][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.406][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-04-12 06:35:20.407][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-04-12 06:35:20.408][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-04-12 06:35:20.409][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.412][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-04-12 06:35:20.413][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-04-12 06:35:20.414][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.416][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-04-12 06:35:20.417][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-04-12 06:35:20.418][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-04-12 06:35:20.419][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.422][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-04-12 06:35:20.423][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-04-12 06:35:20.424][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.427][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-04-12 06:35:20.428][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-04-12 06:35:20.429][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-04-12 06:35:20.430][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.433][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-04-12 06:35:20.434][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-04-12 06:35:20.435][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-04-12 06:35:20.436][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-04-12 06:35:20.437][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-04-12 06:35:20.438][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-04-12 06:35:20.439][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.442][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-04-12 06:35:20.443][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-04-12 06:35:20.444][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.446][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-04-12 06:35:20.447][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-04-12 06:35:20.448][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.451][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-04-12 06:35:20.452][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-04-12 06:35:20.453][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.456][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-04-12 06:35:20.457][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-04-12 06:35:20.458][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.460][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-04-12 06:35:20.462][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-04-12 06:35:20.462][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.464][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.465][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-04-12 06:35:20.466][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-04-12 06:35:20.472][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2022-04-12 06:35:20.473][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.476][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-04-12 06:35:20.477][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-04-12 06:35:20.478][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-04-12 06:35:20.479][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.485][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-04-12 06:35:20.523][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:20.540][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2022-04-12 06:35:20.542][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:20.543][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-04-12 06:35:20.544][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:20.545][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-04-12 06:35:20.546][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:20.547][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-04-12 06:35:20.548][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-04-12 06:35:20.549][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-04-12 06:35:20.550][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:20.551][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-04-12 06:35:20.552][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-04-12 06:35:20.553][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:20.554][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:20.555][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-04-12 06:35:20.555][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-04-12 06:35:20.555][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-04-12 06:35:20.555][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-04-12 06:35:20.555][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-04-12 06:35:20.556][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-04-12 06:35:20.557][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:20.558][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:20.559][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-04-12 06:35:20.560][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:20.561][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:20.562][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-04-12 06:35:20.563][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:20.564][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-04-12 06:35:20.565][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-04-12 06:35:20.566][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:20.567][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:20.568][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-04-12 06:35:20.570][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:20.571][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-04-12 06:35:20.572][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:20.573][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-04-12 06:35:20.574][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:20.575][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-04-12 06:35:20.576][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:20.594][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-04-12 06:35:20.595][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-04-12 06:35:20.596][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-04-12 06:35:20.597][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:20.598][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-04-12 06:35:20.599][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-04-12 06:35:20.600][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:20.600][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:20.601][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-04-12 06:35:20.601][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-04-12 06:35:20.601][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-04-12 06:35:20.601][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-04-12 06:35:20.601][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-04-12 06:35:20.602][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-04-12 06:35:20.603][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:20.604][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:20.605][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-04-12 06:35:20.606][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:20.607][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:20.608][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-04-12 06:35:20.609][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:20.610][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-04-12 06:35:20.611][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-04-12 06:35:20.612][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:20.613][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:20.614][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-04-12 06:35:20.616][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:20.617][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2022-04-12 06:35:20.618][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:20.619][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-04-12 06:35:20.620][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:20.621][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-04-12 06:35:20.622][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:20.623][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-04-12 06:35:20.624][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-04-12 06:35:20.625][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-04-12 06:35:20.626][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:20.627][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-04-12 06:35:20.628][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-04-12 06:35:20.629][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:20.630][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:20.631][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:20.632][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-04-12 06:35:20.634][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:20.634][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:20.636][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-04-12 06:35:20.637][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:20.638][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:20.639][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-04-12 06:35:20.640][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:20.641][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-04-12 06:35:20.642][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-04-12 06:35:20.643][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:20.644][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:20.645][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-04-12 06:35:20.648][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:20.649][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-04-12 06:35:20.650][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:20.651][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-04-12 06:35:20.652][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:20.653][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-04-12 06:35:20.654][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:20.655][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-04-12 06:35:20.656][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-04-12 06:35:20.657][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-04-12 06:35:20.658][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:20.658][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-04-12 06:35:20.659][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-04-12 06:35:20.660][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:20.661][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:20.662][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:20.663][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-04-12 06:35:20.664][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:20.665][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:20.666][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-04-12 06:35:20.667][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:20.668][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:20.668][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-04-12 06:35:20.669][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:20.670][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-04-12 06:35:20.671][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-04-12 06:35:20.672][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:20.673][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:20.677][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-04-12 06:35:20.678][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.680][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:20.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:20.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:20.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:20.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.688][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:20.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:20.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.692][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:20.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:20.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.696][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:20.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:20.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.699][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[2022-04-12 06:35:20.700][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:20.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:20.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.704][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:20.706][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:20.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.708][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:20.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:20.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.712][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:20.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:20.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.716][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:20.718][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:20.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.720][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:20.722][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:20.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.725][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:20.726][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:20.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.728][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.729][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:20.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:20.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.733][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:20.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:20.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:20.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:20.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.742][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:20.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:20.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.746][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:20.748][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:20.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.751][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-04-12 06:35:20.756][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-04-12 06:35:20.757][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-04-12 06:35:20.759][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-04-12 06:35:20.760][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-04-12 06:35:20.761][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-04-12 06:35:20.763][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-04-12 06:35:20.764][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-04-12 06:35:20.766][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-04-12 06:35:20.767][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-04-12 06:35:20.768][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-04-12 06:35:20.770][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-04-12 06:35:20.771][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-04-12 06:35:20.772][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-04-12 06:35:20.774][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-04-12 06:35:20.775][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-04-12 06:35:20.777][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-04-12 06:35:20.778][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-04-12 06:35:20.779][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-04-12 06:35:20.781][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-04-12 06:35:20.782][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-04-12 06:35:20.783][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-04-12 06:35:20.785][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-04-12 06:35:20.786][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-04-12 06:35:20.787][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-04-12 06:35:20.789][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-04-12 06:35:20.790][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-04-12 06:35:20.791][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-04-12 06:35:20.793][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-04-12 06:35:20.794][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-04-12 06:35:20.795][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-04-12 06:35:20.797][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-04-12 06:35:20.798][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-04-12 06:35:20.799][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-04-12 06:35:20.801][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-04-12 06:35:20.802][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-04-12 06:35:20.803][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-04-12 06:35:20.805][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-04-12 06:35:20.806][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-04-12 06:35:20.807][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-04-12 06:35:20.809][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-04-12 06:35:20.810][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-04-12 06:35:20.811][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-04-12 06:35:20.813][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-04-12 06:35:20.814][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-04-12 06:35:20.816][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-04-12 06:35:20.817][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-04-12 06:35:20.819][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-04-12 06:35:20.821][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-04-12 06:35:20.822][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-04-12 06:35:20.824][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-04-12 06:35:20.825][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-04-12 06:35:20.827][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-04-12 06:35:20.828][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-04-12 06:35:20.830][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-04-12 06:35:20.831][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-04-12 06:35:20.832][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-04-12 06:35:20.834][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-04-12 06:35:20.835][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-04-12 06:35:20.836][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-04-12 06:35:20.838][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-04-12 06:35:20.839][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-04-12 06:35:20.847][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-04-12 06:35:20.849][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-04-12 06:35:20.850][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-04-12 06:35:20.852][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-04-12 06:35:20.853][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-04-12 06:35:20.854][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-04-12 06:35:20.856][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-04-12 06:35:20.857][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-04-12 06:35:20.858][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-04-12 06:35:20.860][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-04-12 06:35:20.861][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-04-12 06:35:20.862][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-04-12 06:35:20.864][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-04-12 06:35:20.865][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-04-12 06:35:20.866][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-04-12 06:35:20.868][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-04-12 06:35:20.869][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-04-12 06:35:20.870][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-04-12 06:35:20.872][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-04-12 06:35:20.873][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-04-12 06:35:20.874][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-04-12 06:35:20.881][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-04-12 06:35:20.883][initialize] This is biodb version 1.2.2.
biodb.DEBUG[2022-04-12 06:35:20.886][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-04-12 06:35:20.887][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:20.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:20.889][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.895][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:20.897][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:20.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:20.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:20.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.901][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[2022-04-12 06:35:20.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:20.903][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:20.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:20.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:20.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.908][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:20.910][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:20.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:20.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:20.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.913][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[2022-04-12 06:35:20.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:20.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:20.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:20.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:20.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.919][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[2022-04-12 06:35:20.920][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:20.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:20.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:20.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:20.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.927][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:20.929][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:20.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:20.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:20.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.933][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:20.935][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:20.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:20.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:20.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.939][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[2022-04-12 06:35:20.940][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:20.941][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:20.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:20.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:20.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.946][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:20.947][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:20.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:20.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:20.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.952][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:20.954][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:20.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:20.955][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:20.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.957][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[2022-04-12 06:35:20.958][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:20.960][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:20.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:20.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:20.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.965][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:20.967][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:20.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:20.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:20.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.971][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:20.973][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:20.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:20.974][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:20.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.976][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.977][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:20.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:20.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:20.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:20.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.983][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:20.985][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:20.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:20.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:20.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.989][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:20.991][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:20.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:20.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:20.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:20.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:20.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:35:20.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:20.997][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:20.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:20.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:20.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:21.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:21.002][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.14-bioc/R/library/biodbLipidmaps/definitions.yml".
biodb.DEBUG[2022-04-12 06:35:21.012][self$getDbsInfo()$define] Define connector lipidmaps.structure.
biodb.DEBUG[2022-04-12 06:35:21.014][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:21.015][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2022-04-12 06:35:21.016][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:21.017][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-04-12 06:35:21.018][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:21.019][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-04-12 06:35:21.020][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:21.021][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-04-12 06:35:21.022][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-04-12 06:35:21.023][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-04-12 06:35:21.024][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:21.025][self$setPropertyValue] Setting property "name" to "LIPID MAPS Structure".
biodb.DEBUG[2022-04-12 06:35:21.026][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-04-12 06:35:21.027][self$setPropertyValue] Setting property "parsing.expr" to "LM_ID".
biodb.DEBUG[2022-04-12 06:35:21.027][self$setPropertyValue] Setting property "parsing.expr" to "CHEBI_ID".
biodb.DEBUG[2022-04-12 06:35:21.027][self$setPropertyValue] Setting property "parsing.expr" to "HMDBID".
biodb.DEBUG[2022-04-12 06:35:21.027][self$setPropertyValue] Setting property "parsing.expr" to "KEGG_ID".
biodb.DEBUG[2022-04-12 06:35:21.027][self$setPropertyValue] Setting property "parsing.expr" to "PUBCHEM_COMPOUND_ID".
biodb.DEBUG[2022-04-12 06:35:21.027][self$setPropertyValue] Setting property "parsing.expr" to "SYSTEMATIC_NAME".
biodb.DEBUG[2022-04-12 06:35:21.027][self$setPropertyValue] Setting property "parsing.expr" to "MASS".
biodb.DEBUG[2022-04-12 06:35:21.027][self$setPropertyValue] Setting property "parsing.expr" to "FORMULA".
biodb.DEBUG[2022-04-12 06:35:21.027][self$setPropertyValue] Setting property "parsing.expr" to "COMMON_NAME".
biodb.DEBUG[2022-04-12 06:35:21.028][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2022-04-12 06:35:21.029][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-04-12 06:35:21.029][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-04-12 06:35:21.030][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-04-12 06:35:21.031][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:21.032][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:21.033][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-04-12 06:35:21.033][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:35:21.034][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:35:21.035][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-04-12 06:35:21.036][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/data/".
biodb.DEBUG[2022-04-12 06:35:21.036][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/databases/lmsd/".
biodb.DEBUG[2022-04-12 06:35:21.037][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-04-12 06:35:21.038][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-04-12 06:35:21.039][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2022-04-12 06:35:21.040][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:35:21.046][self$getEntryFields()$define] Define field lipidmaps.structure.id.
biodb.DEBUG[2022-04-12 06:35:21.048][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-04-12 06:35:21.077][initialize] Initialize connector lipidmaps.structure.
biodb.DEBUG[2022-04-12 06:35:21.079][initialize] Register connector lipidmaps.structure with the request scheduler
biodb.DEBUG[2022-04-12 06:35:21.084][private$bdb$getRequestScheduler()$re ...] Register connector lipidmaps.structure.
biodb.DEBUG[2022-04-12 06:35:21.089][private$addConnectorRules] Create new rule for URL "www.lipidmaps.org" of connector "lipidmaps.structure".
biodb.DEBUG[2022-04-12 06:35:21.094][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2022-04-12 06:35:21.095][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2022-04-12 06:35:21.097][rule$addConnector] Connector "lipidmaps.structure" is already listed in rule "www.lipidmaps.org".
biodb.DEBUG[2022-04-12 06:35:21.098][biodb$getFactory()$createConn] Creating new connector lipidmaps.structure for database class lipidmaps.structure .
biodb.INFO [2022-04-12 06:35:21.153][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:21.154][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2022-04-12 06:35:21.155][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:35:21.156][biodb::testThat] 
biodb.TRACE[2022-04-12 06:35:21.161][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.14-bioc/R/library/biodbLipidmaps/testref/entry-lipidmaps.structure-LMFA00000001-content.tsv".
biodb.DEBUG[2022-04-12 06:35:21.174][biodb$getFactory()$createEntryFromCo ...] Creating LIPID MAPS Structure entries from 1 content(s).
biodb.DEBUG[2022-04-12 06:35:21.179][biodb$getFactory()$createEntryFromCo ...] Parsing 1 LIPID MAPS Structure entries.
biodb.DEBUG[2022-04-12 06:35:21.189][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:35:21.190][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:21.191][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:21.193][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:21.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:21.195][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:21.196][FUN] Functions in observer BiodbConfig: [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[2022-04-12 06:35:21.209][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:21.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:21.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.214][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:21.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:21.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.244][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:35:21.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:35:21.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.249][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:21.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:21.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.253][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:21.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:21.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.257][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:21.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:21.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.286][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:21.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:21.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.302][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:21.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:21.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.307][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:21.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:21.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.324][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-04-12 06:35:21.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.329][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-04-12 06:35:21.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.344][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:21.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:21.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.349][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:21.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:21.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.365][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:21.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:21.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.370][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:21.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:21.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.385][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-04-12 06:35:21.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:21.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.390][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2022-04-12 06:35:21.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:21.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.394][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:21.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:21.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.405][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:21.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:21.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.409][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-04-12 06:35:21.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:21.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.439][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:21.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:21.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.443][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:21.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:21.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.478][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:21.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:21.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.482][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:21.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:21.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.486][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:21.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:21.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.499][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:35:21.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:35:21.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.503][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:35:21.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:35:21.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.507][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:21.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:21.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.511][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:35:21.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:35:21.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:21.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:21.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:21.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:21.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:21.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:21.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:21.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:21.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:21.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:21.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:21.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:21.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:21.547][biodb$getFactory()$createEntryFromCo ...] Accession numbers: LMFA00000001.
biodb.TRACE[2022-04-12 06:35:21.561][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-04-12 06:35:21.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-04-12 06:35:21.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.565][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-04-12 06:35:21.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-04-12 06:35:21.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.569][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-04-12 06:35:21.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-04-12 06:35:21.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.573][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-04-12 06:35:21.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-04-12 06:35:21.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:21.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:21.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.625][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:35:21.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:35:21.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:21.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:21.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:21.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:21.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.642][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:21.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:21.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.647][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:21.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:21.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.651][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:21.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:21.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:21.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:21.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.658][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:35:21.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:35:21.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.662][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:35:21.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:35:21.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.666][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:35:21.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:35:21.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:21.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:21.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.682][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:21.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:21.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:21.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:21.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.690][ef$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:21.691][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:21.692][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.693][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:21.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:21.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.705][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:21.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:21.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.709][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:21.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:21.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.713][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:21.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:21.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.717][ef$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:21.718][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:21.719][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.720][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.721][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:21.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:21.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.733][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:21.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:21.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.738][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:21.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:21.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.743][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:21.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:21.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.747][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:21.748][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:21.749][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.750][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.751][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:21.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:21.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.762][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:21.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:21.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.767][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:21.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:21.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.771][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:21.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:21.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.775][ef$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:21.776][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:21.777][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.778][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.779][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:21.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:21.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.791][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.796][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.800][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.804][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.805][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.806][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.807][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.808][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.820][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:21.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:21.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.825][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:21.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:21.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.829][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:21.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:21.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.833][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:21.835][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:21.836][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.837][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.838][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:21.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:21.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.886][ef$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:21.887][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:21.888][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.889][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.894][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:21.895][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:21.896][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.897][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.902][ef$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:21.903][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:21.904][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.905][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.910][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.911][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:21.912][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.913][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.918][ef$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:21.919][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:21.920][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.921][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:21.925][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:21.927][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:21.928][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:21.929][ef$get] fields variable is a list.
biodb.INFO [2022-04-12 06:35:21.935][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:21.936][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2022-04-12 06:35:21.937][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:35:21.938][biodb::testThat] 
biodb.DEBUG[2022-04-12 06:35:21.951][private$loadEntries] Creating entries from ids [1]: "LMFA00000001".
biodb.DEBUG[2022-04-12 06:35:21.959][conn$getEntryContent] Get LIPID MAPS Structure entry content(s) for 1 id(s)...
biodb.TRACE[2022-04-12 06:35:21.963][cch$loadFileContent] Trying to load 1 files from cache: [1]: "LMFA00000001".
biodb.TRACE[2022-04-12 06:35:21.964][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-04-12 06:35:21.966][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA00000001.tsv".
biodb.DEBUG[2022-04-12 06:35:21.967][conn$getEntryContent] 1 LIPID MAPS Structure entry content(s) loaded from cache.
biodb.DEBUG[2022-04-12 06:35:22.017][self$createEntryFromContent] Creating LIPID MAPS Structure entries from 1 content(s).
biodb.DEBUG[2022-04-12 06:35:22.018][self$createEntryFromContent] Parsing 1 LIPID MAPS Structure entries.
biodb.DEBUG[2022-04-12 06:35:22.020][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:35:22.021][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:22.022][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:22.024][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:22.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:22.025][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:22.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-04-12 06:35:22.030][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:22.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:22.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.048][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:22.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:22.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.066][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:35:22.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:35:22.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.070][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:22.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:35:22.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.074][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:22.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:35:22.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.078][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:22.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:22.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.083][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:22.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:35:22.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.097][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:22.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:22.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.101][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:22.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:35:22.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.125][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-04-12 06:35:22.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:22.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.129][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-04-12 06:35:22.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:22.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.143][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:22.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:22.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.147][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:35:22.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:35:22.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.161][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:22.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:22.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.165][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:22.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:22.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.178][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-04-12 06:35:22.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:22.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.182][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2022-04-12 06:35:22.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:22.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.186][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:22.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:22.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.189][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:22.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:22.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.193][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-04-12 06:35:22.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:22.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.207][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:22.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:22.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.211][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:22.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:22.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.215][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:22.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:22.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.219][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:22.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:22.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.223][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:22.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:22.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.237][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:35:22.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:35:22.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.241][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:35:22.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:35:22.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.244][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:22.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:22.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.248][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:35:22.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:35:22.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.252][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:22.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:22.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.255][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:22.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:22.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.259][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:22.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:22.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:22.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:22.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.275][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:22.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:22.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.279][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:35:22.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:35:22.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:22.282][self$createEntryFromContent] Accession numbers: LMFA00000001.
biodb.TRACE[2022-04-12 06:35:22.283][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2022-04-12 06:35:22.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2022-04-12 06:35:22.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.287][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2022-04-12 06:35:22.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2022-04-12 06:35:22.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.290][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2022-04-12 06:35:22.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2022-04-12 06:35:22.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-04-12 06:35:22.299][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:22.300][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2022-04-12 06:35:22.301][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:35:22.302][biodb::testThat] 
biodb.TRACE[2022-04-12 06:35:22.305][ef$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:22.306][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:22.306][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.307][ef$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:22.308][function(conn, opt)] Testing searchForEntries() with entry "LMFA00000001" and field "name".
biodb.TRACE[2022-04-12 06:35:22.337][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:22.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:22.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.341][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:22.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:22.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:22.344][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:22.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:22.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:22.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:22.349][function(conn, opt)] With value "2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride".
biodb.DEBUG[2022-04-12 06:35:22.410][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[2022-04-12 06:35:22.425][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:35:22.426][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:35:22.428][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl%20anhydride".
biodb.TRACE[2022-04-12 06:35:24.189][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl%20anhydride).
biodb.DEBUG[2022-04-12 06:35:25.188][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-04-12 06:35:25.207][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.content"
biodb.TRACE[2022-04-12 06:35:25.254][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.request"
biodb.DEBUG[2022-04-12 06:35:25.264][function(conn, opt)] With found IDs [1]: "LMFA00000001".
biodb.TRACE[2022-04-12 06:35:25.277][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:25.278][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:25.279][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.280][ef$get] fields variable is a list.
biodb.INFO [2022-04-12 06:35:25.282][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:25.283][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2022-04-12 06:35:25.283][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:35:25.284][biodb::testThat] 
biodb.TRACE[2022-04-12 06:35:25.300][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:25.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:25.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.304][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:25.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:25.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.307][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:25.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:25.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:25.430][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride".
biodb.DEBUG[2022-04-12 06:35:25.433][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-04-12 06:35:25.449][cch$loadFileContent] Trying to load 1 files from cache: [1]: "e8702bf6dc5a5afd048f747914fd7a6a".
biodb.TRACE[2022-04-12 06:35:25.450][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-04-12 06:35:25.452][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.content".
biodb.INFO [2022-04-12 06:35:25.466][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:25.467][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2022-04-12 06:35:25.468][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:35:25.469][biodb::testThat] 
biodb.TRACE[2022-04-12 06:35:25.509][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-04-12 06:35:25.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-04-12 06:35:25.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.513][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-04-12 06:35:25.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-04-12 06:35:25.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.517][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-04-12 06:35:25.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-04-12 06:35:25.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.521][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-04-12 06:35:25.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-04-12 06:35:25.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.575][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-04-12 06:35:25.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-04-12 06:35:25.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.579][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-04-12 06:35:25.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-04-12 06:35:25.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.583][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-04-12 06:35:25.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-04-12 06:35:25.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:25.586][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-04-12 06:35:25.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-04-12 06:35:25.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:25.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-04-12 06:35:25.593][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:25.594][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2022-04-12 06:35:25.594][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:35:25.595][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:25.600][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:25.601][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2022-04-12 06:35:25.602][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:35:25.603][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:25.607][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:25.608][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2022-04-12 06:35:25.609][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:35:25.610][biodb::testThat] 
biodb.DEBUG[2022-04-12 06:35:25.613][function(conn, opt)] Trying to download "https://www.lipidmaps.org/data?LMID=LMFA00000001".
biodb.DEBUG[2022-04-12 06:35:26.377][getUrlContent] Use RCurl for downloading content of URL https://www.lipidmaps.org/data?LMID=LMFA00000001.
biodb.INFO [2022-04-12 06:35:27.102][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:27.104][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2022-04-12 06:35:27.105][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:35:27.107][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:27.114][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:27.115][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2022-04-12 06:35:27.117][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:35:27.118][biodb::testThat] 
biodb.TRACE[2022-04-12 06:35:27.137][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:27.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:27.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:27.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:27.144][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:27.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:27.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:27.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:27.150][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:35:27.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:35:27.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:27.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:27.359][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride".
biodb.DEBUG[2022-04-12 06:35:27.364][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-04-12 06:35:27.365][cch$loadFileContent] Trying to load 1 files from cache: [1]: "e8702bf6dc5a5afd048f747914fd7a6a".
biodb.TRACE[2022-04-12 06:35:27.367][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-04-12 06:35:27.368][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.content".
biodb.DEBUG[2022-04-12 06:35:27.417][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride".
biodb.DEBUG[2022-04-12 06:35:27.420][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-04-12 06:35:27.421][cch$loadFileContent] Trying to load 1 files from cache: [1]: "e8702bf6dc5a5afd048f747914fd7a6a".
biodb.TRACE[2022-04-12 06:35:27.422][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-04-12 06:35:27.423][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.content".
biodb.TRACE[2022-04-12 06:35:27.439][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:27.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:27.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:27.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:27.448][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-04-12 06:35:27.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-04-12 06:35:27.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:27.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:27.457][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:27.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:27.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:27.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:27.461][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:27.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:27.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:27.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:27.466][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:27.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:27.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:27.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:27.469][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:27.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:27.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:27.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:27.473][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:27.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:27.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:27.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:27.525][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=1e-06".
biodb.DEBUG[2022-04-12 06:35:27.540][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:35:27.541][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:35:27.555][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=1e-06".
biodb.TRACE[2022-04-12 06:35:31.898][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=1e-06).
biodb.DEBUG[2022-04-12 06:35:42.358][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-04-12 06:35:42.369][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/304383a7dc8c451be84009e31d831359.content"
biodb.TRACE[2022-04-12 06:35:42.395][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/304383a7dc8c451be84009e31d831359.request"
biodb.DEBUG[2022-04-12 06:35:42.805][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[2022-04-12 06:35:42.808][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:35:42.809][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:35:42.810][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl%20anhydride&ExactMass=626.491025&ExactMassOffSet=1e-06".
biodb.TRACE[2022-04-12 06:35:43.455][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl%20anhydride&ExactMass=626.491025&ExactMassOffSet=1e-06).
biodb.DEBUG[2022-04-12 06:35:44.149][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-04-12 06:35:44.158][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/7f71825f1888a7b29e4b8407502d21e3.content"
biodb.TRACE[2022-04-12 06:35:44.171][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/7f71825f1888a7b29e4b8407502d21e3.request"
biodb.DEBUG[2022-04-12 06:35:44.235][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride&ExactMass=626.491026&ExactMassOffSet=2e-06".
biodb.DEBUG[2022-04-12 06:35:44.238][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:35:44.239][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:35:44.240][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl%20anhydride&ExactMass=626.491026&ExactMassOffSet=2e-06".
biodb.TRACE[2022-04-12 06:35:44.876][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl%20anhydride&ExactMass=626.491026&ExactMassOffSet=2e-06).
biodb.DEBUG[2022-04-12 06:35:45.605][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-04-12 06:35:45.616][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/fd41c675dd237f33cdaafcbb15058c54.content"
biodb.TRACE[2022-04-12 06:35:45.631][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/fd41c675dd237f33cdaafcbb15058c54.request"
biodb.TRACE[2022-04-12 06:35:45.653][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2022-04-12 06:35:45.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2022-04-12 06:35:45.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:45.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-04-12 06:35:45.663][biodb::testThat] 
biodb.INFO [2022-04-12 06:35:45.664][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2022-04-12 06:35:45.665][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:35:45.666][biodb::testThat] 
biodb.TRACE[2022-04-12 06:35:45.670][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:35:45.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:35:45.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:45.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:45.673][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-04-12 06:35:45.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-04-12 06:35:45.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:45.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:45.677][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:45.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:45.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:45.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:45.681][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:45.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:45.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:45.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:45.685][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:45.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:45.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:45.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:35:45.689][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:45.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:35:45.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:35:45.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:35:45.695][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:35:45.696][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:35:45.697][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:35:45.699][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:35:45.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:35:45.700][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:35:45.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:35:45.863][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[2022-04-12 06:35:45.866][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:35:45.867][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:35:45.869][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.01".
biodb.TRACE[2022-04-12 06:35:50.382][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.01).
biodb.DEBUG[2022-04-12 06:36:00.664][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.INFO [2022-04-12 06:36:00.684][self$getFolderPath] Create cache folder "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b" for "lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b".
biodb.TRACE[2022-04-12 06:36:00.700][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f4acf835cb23946f08f684530aa686a3.content"
biodb.TRACE[2022-04-12 06:36:00.763][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f4acf835cb23946f08f684530aa686a3.request"
biodb.DEBUG[2022-04-12 06:36:01.103][private$loadEntries] Creating entries from ids [2]: "LMFA00000002, LMFA00000003".
biodb.DEBUG[2022-04-12 06:36:01.150][conn$getEntryContent] Get LIPID MAPS Structure entry content(s) for 2 id(s)...
biodb.TRACE[2022-04-12 06:36:01.152][cch$loadFileContent] Trying to load 2 files from cache: [2]: "LMFA00000002, LMFA00000003".
biodb.TRACE[2022-04-12 06:36:01.154][cch$loadFileContent] file.exist = [2]: "FALSE, FALSE".
biodb.TRACE[2022-04-12 06:36:01.155][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-04-12 06:36:01.156][conn$getEntryContent] 0 LIPID MAPS Structure entry content(s) loaded from cache.
biodb.DEBUG[2022-04-12 06:36:01.157][conn$getEntryContent] 2 entry content(s) need to be fetched from LIPID MAPS Structure database "https://www.lipidmaps.org/data/".
biodb.DEBUG[2022-04-12 06:36:01.158][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-04-12 06:36:01.159][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-04-12 06:36:01.202][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:36:01.203][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:36:01.204][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:36:01.206][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:36:01.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:36:01.207][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:36:01.208][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:36:01.210][scheduler$sendRequest] Getting content of get URL request "https://www.lipidmaps.org/databases/lmsd/LMFA00000002?format=tsv".
biodb.DEBUG[2022-04-12 06:36:01.212][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:36:01.213][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:36:01.214][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/LMFA00000002?format=tsv".
biodb.TRACE[2022-04-12 06:36:01.890][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/databases/lmsd/LMFA00000002?format=tsv).
biodb.DEBUG[2022-04-12 06:36:02.642][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-04-12 06:36:02.674][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/a989db4a318873c598872a885a94e78c.content"
biodb.TRACE[2022-04-12 06:36:02.725][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/a989db4a318873c598872a885a94e78c.request"
biodb.DEBUG[2022-04-12 06:36:02.741][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:36:02.742][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:36:02.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:36:02.746][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:36:02.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:36:02.748][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:36:02.749][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:36:02.750][scheduler$sendRequest] Getting content of get URL request "https://www.lipidmaps.org/databases/lmsd/LMFA00000003?format=tsv".
biodb.DEBUG[2022-04-12 06:36:02.753][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:36:02.754][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:36:02.756][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/LMFA00000003?format=tsv".
biodb.TRACE[2022-04-12 06:36:03.435][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/databases/lmsd/LMFA00000003?format=tsv).
biodb.DEBUG[2022-04-12 06:36:04.219][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-04-12 06:36:04.250][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f88961343869f5da5bc09cbcc0e6185e.content"
biodb.TRACE[2022-04-12 06:36:04.296][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f88961343869f5da5bc09cbcc0e6185e.request"
biodb.TRACE[2022-04-12 06:36:04.367][private$doSaveContentToFile] Saving to cache [2]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA00000002.tsv, /home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA00000003.tsv"
biodb.DEBUG[2022-04-12 06:36:04.386][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-04-12 06:36:04.426][self$createEntryFromContent] Creating LIPID MAPS Structure entries from 2 content(s).
biodb.DEBUG[2022-04-12 06:36:04.428][self$createEntryFromContent] Parsing 2 LIPID MAPS Structure entries.
biodb.DEBUG[2022-04-12 06:36:04.431][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:36:04.433][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:36:04.434][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:36:04.437][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:36:04.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:36:04.440][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:36:04.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-04-12 06:36:04.448][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:04.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:04.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:04.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:04.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.476][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:36:04.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:36:04.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.483][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:36:04.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:36:04.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.522][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:36:04.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:36:04.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.531][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:36:04.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:36:04.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.538][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:36:04.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:36:04.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.545][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:36:04.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:36:04.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.569][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:36:04.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:36:04.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.576][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:36:04.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:36:04.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.602][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-04-12 06:36:04.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:36:04.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.610][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-04-12 06:36:04.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:36:04.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.634][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:36:04.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:36:04.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.701][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:36:04.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:36:04.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.717][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:36:04.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:36:04.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.721][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:36:04.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:36:04.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.735][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-04-12 06:36:04.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:36:04.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.740][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2022-04-12 06:36:04.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:36:04.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.744][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:36:04.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:36:04.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.748][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:36:04.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:36:04.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.752][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-04-12 06:36:04.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:36:04.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.766][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:04.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:04.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.770][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:04.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:04.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.774][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:04.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:04.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.778][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:04.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:04.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.782][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:04.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:04.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.786][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:04.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:04.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.790][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:04.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:04.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:36:04.805][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:36:04.806][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:36:04.808][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:36:04.810][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:36:04.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:36:04.812][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:36:04.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-04-12 06:36:04.817][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:04.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:04.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.821][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:04.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:04.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.836][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:36:04.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:36:04.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.841][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:36:04.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:36:04.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.845][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:36:04.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:36:04.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.850][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:36:04.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:36:04.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.854][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:36:04.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:36:04.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.869][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:36:04.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:36:04.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.874][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:36:04.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:36:04.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.902][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-04-12 06:36:04.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:36:04.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.907][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-04-12 06:36:04.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:36:04.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.921][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:36:04.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:36:04.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.926][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:36:04.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:36:04.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.940][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:36:04.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:36:04.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.944][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:36:04.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:36:04.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.959][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-04-12 06:36:04.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:36:04.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.963][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2022-04-12 06:36:04.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:36:04.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.967][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:36:04.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:36:04.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.971][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:36:04.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:36:04.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.975][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-04-12 06:36:04.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:36:04.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.989][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:04.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:04.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.994][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:04.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:04.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:04.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:04.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:04.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:05.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.001][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:05.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:05.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.009][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:05.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:05.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:05.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:05.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.027][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:05.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:05.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.031][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:05.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:05.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:05.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:05.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.039][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:05.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:05.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.043][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:05.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:05.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.047][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:05.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:05.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:36:05.051][self$createEntryFromContent] Accession numbers: LMFA00000002, LMFA00000003.
biodb.DEBUG[2022-04-12 06:36:05.073][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2022-04-12 06:36:05.076][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:36:05.077][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:36:05.078][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:36:05.080][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:36:05.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:36:05.081][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:36:05.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-04-12 06:36:05.084][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.088][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.092][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:36:05.092][private$selectFields] 
biodb.TRACE[2022-04-12 06:36:05.093][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-04-12 06:36:05.094][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-04-12 06:36:05.095][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:36:05.096][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.097][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.098][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.099][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.100][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.101][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.102][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.103][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.104][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:36:05.105][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:36:05.106][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.107][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.108][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.109][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.110][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2022-04-12 06:36:05.111][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.115][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.119][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.132][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2022-04-12 06:36:05.133][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:36:05.134][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:36:05.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:36:05.137][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:36:05.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:36:05.138][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:36:05.139][FUN] Functions in observer BiodbConfig: [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[2022-04-12 06:36:05.140][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.144][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.148][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:36:05.149][private$selectFields] 
biodb.TRACE[2022-04-12 06:36:05.150][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-04-12 06:36:05.151][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-04-12 06:36:05.152][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:36:05.153][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.154][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.154][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.155][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.156][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.157][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.158][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.159][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.160][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:36:05.161][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:36:05.162][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.163][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.164][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.165][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.166][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2022-04-12 06:36:05.167][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.171][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.174][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.179][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2022-04-12 06:36:05.180][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:36:05.180][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:36:05.181][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:36:05.183][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:36:05.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:36:05.185][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:36:05.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-04-12 06:36:05.187][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.191][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.195][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:36:05.196][private$selectFields] 
biodb.TRACE[2022-04-12 06:36:05.197][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-04-12 06:36:05.197][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-04-12 06:36:05.198][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:36:05.200][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.201][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.202][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.202][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.203][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.204][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.205][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.206][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.207][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:36:05.208][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:36:05.209][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.210][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.211][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.212][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.213][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2022-04-12 06:36:05.214][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.218][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.222][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:05.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.237][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2022-04-12 06:36:05.239][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2022-04-12 06:36:05.240][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2022-04-12 06:36:05.250][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2022-04-12 06:36:05.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2022-04-12 06:36:05.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-04-12 06:36:05.255][biodb::testThat] 
biodb.INFO [2022-04-12 06:36:05.256][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2022-04-12 06:36:05.257][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:36:05.258][biodb::testThat] 
biodb.TRACE[2022-04-12 06:36:05.261][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:36:05.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:36:05.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.265][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-04-12 06:36:05.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-04-12 06:36:05.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.269][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:36:05.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:36:05.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.273][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:36:05.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:36:05.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.277][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:36:05.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:36:05.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:05.281][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:36:05.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:36:05.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:05.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:36:05.338][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:36:05.339][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:36:05.340][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:36:05.342][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:36:05.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:36:05.344][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:36:05.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:36:05.532][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.009397365375".
biodb.DEBUG[2022-04-12 06:36:05.536][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:36:05.538][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:36:05.539][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.009397365375".
biodb.TRACE[2022-04-12 06:36:10.247][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.009397365375).
biodb.DEBUG[2022-04-12 06:36:20.267][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-04-12 06:36:20.292][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/5652f5994fce967a05a065a71bac3ed6.content"
biodb.TRACE[2022-04-12 06:36:20.334][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/5652f5994fce967a05a065a71bac3ed6.request"
biodb.DEBUG[2022-04-12 06:36:20.676][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2022-04-12 06:36:20.699][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:36:20.701][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:36:20.702][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:36:20.704][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:36:20.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:36:20.706][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:36:20.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-04-12 06:36:20.721][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:20.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:20.757][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:20.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:20.782][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:36:20.783][private$selectFields] 
biodb.TRACE[2022-04-12 06:36:20.784][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-04-12 06:36:20.785][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-04-12 06:36:20.786][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:36:20.787][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.788][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.789][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:20.790][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:20.791][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.792][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.793][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:20.794][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:20.795][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:36:20.805][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:36:20.806][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.807][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.808][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:20.809][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:20.810][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2022-04-12 06:36:20.811][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:20.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:20.815][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:20.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:20.818][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:20.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:20.822][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2022-04-12 06:36:20.823][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:36:20.824][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:36:20.825][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:36:20.827][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:36:20.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:36:20.828][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:36:20.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-04-12 06:36:20.830][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:20.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:20.834][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:20.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:20.838][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:36:20.839][private$selectFields] 
biodb.TRACE[2022-04-12 06:36:20.839][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-04-12 06:36:20.840][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-04-12 06:36:20.841][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:36:20.842][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.843][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.844][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:20.845][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:20.846][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.847][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.848][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:20.849][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:20.850][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:36:20.850][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:36:20.851][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.852][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.853][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:20.854][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:20.855][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2022-04-12 06:36:20.856][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:20.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:20.860][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:20.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:20.864][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:20.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:20.868][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2022-04-12 06:36:20.869][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:36:20.870][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:36:20.871][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:36:20.873][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:36:20.874][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:36:20.875][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:36:20.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-04-12 06:36:20.877][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:20.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:20.881][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:20.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:20.885][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:36:20.886][private$selectFields] 
biodb.TRACE[2022-04-12 06:36:20.887][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-04-12 06:36:20.888][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-04-12 06:36:20.889][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:36:20.890][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.891][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.906][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:20.907][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:20.908][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.909][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.910][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:20.911][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:20.912][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:36:20.913][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:36:20.914][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.915][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.916][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:20.917][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:20.918][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2022-04-12 06:36:20.919][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:20.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:20.923][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:20.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:20.927][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:20.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:20.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:20.931][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2022-04-12 06:36:20.932][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2022-04-12 06:36:20.933][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2022-04-12 06:36:20.941][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2022-04-12 06:36:20.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2022-04-12 06:36:20.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:20.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-04-12 06:36:20.946][biodb::testThat] 
biodb.INFO [2022-04-12 06:36:20.947][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2022-04-12 06:36:20.948][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:36:20.949][biodb::testThat] 
biodb.TRACE[2022-04-12 06:36:20.952][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-04-12 06:36:20.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-04-12 06:36:20.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:20.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:20.956][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-04-12 06:36:20.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-04-12 06:36:20.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:20.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:20.960][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:36:20.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:36:20.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:20.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:20.964][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:36:20.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:36:20.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:20.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:20.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:36:20.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:36:20.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:20.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:20.971][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:36:20.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:36:20.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:20.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:36:20.979][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:36:20.980][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:36:20.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:36:20.983][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:36:20.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:36:20.985][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:36:20.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:36:21.246][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[2022-04-12 06:36:21.249][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-04-12 06:36:21.251][cch$loadFileContent] Trying to load 1 files from cache: [1]: "f4acf835cb23946f08f684530aa686a3".
biodb.TRACE[2022-04-12 06:36:21.253][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-04-12 06:36:21.307][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f4acf835cb23946f08f684530aa686a3.content".
biodb.DEBUG[2022-04-12 06:36:21.908][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2022-04-12 06:36:21.911][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:36:21.912][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:36:21.913][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:36:21.915][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:36:21.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:36:21.917][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:36:21.918][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.TRACE[2022-04-12 06:36:21.919][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:21.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:21.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:21.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:21.923][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:21.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:21.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:21.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:21.928][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:36:21.929][private$selectFields] 
biodb.TRACE[2022-04-12 06:36:21.930][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-04-12 06:36:21.931][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-04-12 06:36:21.932][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:36:21.933][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:21.934][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:21.935][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:21.936][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:21.937][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:21.938][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:21.939][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:21.940][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:21.941][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:36:21.942][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:36:21.943][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:21.944][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:21.945][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:21.966][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:21.968][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2022-04-12 06:36:21.969][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:21.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:21.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:21.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:21.973][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:21.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:21.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:21.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:21.977][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:21.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:21.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:21.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:21.981][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2022-04-12 06:36:21.982][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:36:21.983][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:36:21.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:36:21.986][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:36:21.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:36:21.987][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:36:21.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-04-12 06:36:21.989][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:21.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:21.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:21.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:21.993][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:21.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:21.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:21.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:21.997][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:36:21.998][private$selectFields] 
biodb.TRACE[2022-04-12 06:36:21.999][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-04-12 06:36:22.000][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-04-12 06:36:22.001][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:36:22.002][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:22.003][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:22.004][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:22.004][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:22.005][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:22.006][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:22.007][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:22.008][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:22.009][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:36:22.010][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:36:22.011][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:22.012][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:22.013][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:22.013][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:22.014][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2022-04-12 06:36:22.015][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:22.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:22.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:22.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:22.019][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:22.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:22.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:22.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:22.023][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:22.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:22.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:22.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:22.027][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2022-04-12 06:36:22.028][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:36:22.029][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:36:22.030][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:36:22.032][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:36:22.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:36:22.034][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:36:22.035][FUN] Functions in observer BiodbConfig: [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[2022-04-12 06:36:22.036][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:22.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:22.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:22.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:22.040][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:22.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:22.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:22.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:22.043][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:36:22.044][private$selectFields] 
biodb.TRACE[2022-04-12 06:36:22.045][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-04-12 06:36:22.046][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-04-12 06:36:22.047][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:36:22.048][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:22.049][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:22.050][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:22.051][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:22.052][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:22.053][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:22.054][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:22.054][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:22.055][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:36:22.056][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:36:22.057][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:22.058][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:22.059][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:22.060][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:22.061][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2022-04-12 06:36:22.062][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:22.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:22.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:22.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:22.066][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:22.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:22.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:22.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:22.070][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:22.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:22.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:22.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:22.074][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2022-04-12 06:36:22.075][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2022-04-12 06:36:22.076][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2022-04-12 06:36:22.096][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2022-04-12 06:36:22.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2022-04-12 06:36:22.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:22.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-04-12 06:36:22.101][biodb::testThat] 
biodb.INFO [2022-04-12 06:36:22.102][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2022-04-12 06:36:22.103][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:36:22.104][biodb::testThat] 
biodb.DEBUG[2022-04-12 06:36:22.106][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2022-04-12 06:36:22.107][conn$getEntryContent] Get LIPID MAPS Structure entry content(s) for 1 id(s)...
biodb.TRACE[2022-04-12 06:36:22.109][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2022-04-12 06:36:22.121][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-04-12 06:36:22.123][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-04-12 06:36:22.124][conn$getEntryContent] 0 LIPID MAPS Structure entry content(s) loaded from cache.
biodb.DEBUG[2022-04-12 06:36:22.125][conn$getEntryContent] 1 entry content(s) need to be fetched from LIPID MAPS Structure database "https://www.lipidmaps.org/data/".
biodb.DEBUG[2022-04-12 06:36:22.126][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-04-12 06:36:22.127][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-04-12 06:36:22.140][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:36:22.141][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:36:22.142][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:36:22.144][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:36:22.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:36:22.145][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:36:22.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:36:22.147][scheduler$sendRequest] Getting content of get URL request "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv".
biodb.DEBUG[2022-04-12 06:36:22.150][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:36:22.151][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:36:22.152][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv".
biodb.TRACE[2022-04-12 06:36:22.785][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv does not exist.
biodb.TRACE[2022-04-12 06:36:22.786][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-04-12 06:36:22.788][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-04-12 06:36:22.790][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv).
biodb.INFO [2022-04-12 06:36:23.646][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-04-12 06:36:23.648][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:36:23.649][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:36:23.650][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv".
biodb.TRACE[2022-04-12 06:36:24.306][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv does not exist.
biodb.TRACE[2022-04-12 06:36:24.308][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-04-12 06:36:24.311][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-04-12 06:36:24.312][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv).
biodb.INFO [2022-04-12 06:36:25.165][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-04-12 06:36:25.166][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:36:25.167][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:36:25.169][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv".
biodb.TRACE[2022-04-12 06:36:25.800][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv does not exist.
biodb.TRACE[2022-04-12 06:36:25.802][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-04-12 06:36:25.804][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-04-12 06:36:25.806][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv).
biodb.INFO [2022-04-12 06:36:26.606][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-04-12 06:36:26.616][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:36:26.619][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:36:26.621][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv".
biodb.TRACE[2022-04-12 06:36:27.284][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv does not exist.
biodb.TRACE[2022-04-12 06:36:27.286][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-04-12 06:36:27.288][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-04-12 06:36:27.290][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv).
biodb.INFO [2022-04-12 06:36:28.178][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-04-12 06:36:28.180][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:36:28.181][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:36:28.183][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv".
biodb.TRACE[2022-04-12 06:36:28.899][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv does not exist.
biodb.TRACE[2022-04-12 06:36:28.901][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-04-12 06:36:28.903][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-04-12 06:36:28.904][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv).
biodb.INFO [2022-04-12 06:36:29.774][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-04-12 06:36:29.775][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:36:29.776][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:36:29.777][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv".
biodb.TRACE[2022-04-12 06:36:30.413][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv does not exist.
biodb.TRACE[2022-04-12 06:36:30.416][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-04-12 06:36:30.417][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-04-12 06:36:30.419][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv).
biodb.INFO [2022-04-12 06:36:31.281][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-04-12 06:36:31.282][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:36:31.283][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:36:31.284][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv".
biodb.TRACE[2022-04-12 06:36:31.909][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv does not exist.
biodb.TRACE[2022-04-12 06:36:31.912][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-04-12 06:36:31.914][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-04-12 06:36:31.916][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv).
biodb.INFO [2022-04-12 06:36:32.663][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-04-12 06:36:32.674][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:36:32.677][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:36:32.679][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv".
biodb.TRACE[2022-04-12 06:36:33.305][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv does not exist.
biodb.TRACE[2022-04-12 06:36:33.307][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-04-12 06:36:33.309][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-04-12 06:36:33.312][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv).
biodb.INFO [2022-04-12 06:36:34.167][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-04-12 06:36:34.168][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:36:34.169][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:36:34.170][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv".
biodb.TRACE[2022-04-12 06:36:34.820][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv does not exist.
biodb.TRACE[2022-04-12 06:36:34.822][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-04-12 06:36:34.824][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-04-12 06:36:34.827][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv).
biodb.INFO [2022-04-12 06:36:35.695][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-04-12 06:36:35.697][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:36:35.698][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:36:35.700][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv".
biodb.TRACE[2022-04-12 06:36:36.353][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv does not exist.
biodb.TRACE[2022-04-12 06:36:36.355][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-04-12 06:36:36.358][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-04-12 06:36:36.360][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv).
biodb.INFO [2022-04-12 06:36:37.224][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv". Retrying connection to server...
biodb.TRACE[2022-04-12 06:36:37.242][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/WRONGA.tsv"
biodb.DEBUG[2022-04-12 06:36:37.253][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-04-12 06:36:37.276][self$createEntryFromContent] Creating LIPID MAPS Structure entries from 1 content(s).
biodb.DEBUG[2022-04-12 06:36:37.277][self$createEntryFromContent] Parsing 1 LIPID MAPS Structure entries.
biodb.DEBUG[2022-04-12 06:36:37.279][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:36:37.280][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:36:37.281][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:36:37.283][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:36:37.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:36:37.285][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:36:37.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-04-12 06:36:37.287][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:37.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:37.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:37.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:37.291][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:37.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:37.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:37.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:37.295][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:37.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:37.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:37.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:37.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:37.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:37.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:37.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:37.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:37.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:37.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:37.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:37.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:37.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:37.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:37.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:37.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:37.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:37.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:37.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:37.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:37.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:37.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:37.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:36:37.317][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2022-04-12 06:36:37.318][self$createEntryFromContent] Found %d entry/ies without an accession number. Set it/them to NULL.1
biodb.INFO [2022-04-12 06:36:37.324][biodb::testThat] 
biodb.INFO [2022-04-12 06:36:37.325][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2022-04-12 06:36:37.326][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:36:37.327][biodb::testThat] 
biodb.DEBUG[2022-04-12 06:36:37.334][function(conn, opt)] IDS: [4]: "WRONGB, LMFA00000001, LMFA00000002, LMFA08040013"
biodb.DEBUG[2022-04-12 06:36:37.335][private$loadEntries] Creating entries from ids [2]: "WRONGB, LMFA08040013".
biodb.DEBUG[2022-04-12 06:36:37.336][conn$getEntryContent] Get LIPID MAPS Structure entry content(s) for 2 id(s)...
biodb.TRACE[2022-04-12 06:36:37.338][cch$loadFileContent] Trying to load 2 files from cache: [2]: "WRONGB, LMFA08040013".
biodb.TRACE[2022-04-12 06:36:37.339][cch$loadFileContent] file.exist = [2]: "FALSE, FALSE".
biodb.TRACE[2022-04-12 06:36:37.340][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-04-12 06:36:37.341][conn$getEntryContent] 0 LIPID MAPS Structure entry content(s) loaded from cache.
biodb.DEBUG[2022-04-12 06:36:37.342][conn$getEntryContent] 2 entry content(s) need to be fetched from LIPID MAPS Structure database "https://www.lipidmaps.org/data/".
biodb.DEBUG[2022-04-12 06:36:37.343][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-04-12 06:36:37.344][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-04-12 06:36:37.348][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:36:37.349][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:36:37.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:36:37.351][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:36:37.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:36:37.353][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:36:37.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:36:37.355][scheduler$sendRequest] Getting content of get URL request "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv".
biodb.DEBUG[2022-04-12 06:36:37.371][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:36:37.372][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:36:37.374][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv".
biodb.TRACE[2022-04-12 06:36:38.012][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv does not exist.
biodb.TRACE[2022-04-12 06:36:38.014][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-04-12 06:36:38.016][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-04-12 06:36:38.017][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv).
biodb.INFO [2022-04-12 06:36:38.866][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-04-12 06:36:38.867][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:36:38.868][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:36:38.869][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv".
biodb.TRACE[2022-04-12 06:36:39.510][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv does not exist.
biodb.TRACE[2022-04-12 06:36:39.512][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-04-12 06:36:39.515][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-04-12 06:36:39.516][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv).
biodb.INFO [2022-04-12 06:36:40.390][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-04-12 06:36:40.392][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:36:40.393][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:36:40.395][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv".
biodb.TRACE[2022-04-12 06:36:41.048][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv does not exist.
biodb.TRACE[2022-04-12 06:36:41.050][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-04-12 06:36:41.051][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-04-12 06:36:41.052][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv).
biodb.INFO [2022-04-12 06:36:41.984][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-04-12 06:36:41.986][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:36:41.987][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:36:41.989][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv".
biodb.TRACE[2022-04-12 06:36:42.634][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv does not exist.
biodb.TRACE[2022-04-12 06:36:42.636][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-04-12 06:36:42.638][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-04-12 06:36:42.639][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv).
biodb.INFO [2022-04-12 06:36:43.497][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-04-12 06:36:43.498][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:36:43.500][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:36:43.501][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv".
biodb.TRACE[2022-04-12 06:36:44.162][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv does not exist.
biodb.TRACE[2022-04-12 06:36:44.164][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-04-12 06:36:44.166][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-04-12 06:36:44.169][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv).
biodb.INFO [2022-04-12 06:36:44.921][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-04-12 06:36:44.923][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:36:44.924][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:36:44.925][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv".
biodb.TRACE[2022-04-12 06:36:45.556][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv does not exist.
biodb.TRACE[2022-04-12 06:36:45.558][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-04-12 06:36:45.560][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-04-12 06:36:45.561][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv).
biodb.INFO [2022-04-12 06:36:46.483][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-04-12 06:36:46.485][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:36:46.487][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:36:46.490][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv".
biodb.TRACE[2022-04-12 06:36:47.143][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv does not exist.
biodb.TRACE[2022-04-12 06:36:47.145][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-04-12 06:36:47.148][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-04-12 06:36:47.149][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv).
biodb.INFO [2022-04-12 06:36:47.969][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-04-12 06:36:47.971][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:36:47.973][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:36:47.975][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv".
biodb.TRACE[2022-04-12 06:36:48.671][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv does not exist.
biodb.TRACE[2022-04-12 06:36:48.672][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-04-12 06:36:48.674][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-04-12 06:36:48.676][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv).
biodb.INFO [2022-04-12 06:36:49.456][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-04-12 06:36:49.458][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:36:49.460][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:36:49.462][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv".
biodb.TRACE[2022-04-12 06:36:50.139][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv does not exist.
biodb.TRACE[2022-04-12 06:36:50.141][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-04-12 06:36:50.143][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-04-12 06:36:50.144][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv).
biodb.INFO [2022-04-12 06:36:50.913][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-04-12 06:36:50.914][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:36:50.916][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:36:50.917][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv".
biodb.TRACE[2022-04-12 06:36:51.547][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv does not exist.
biodb.TRACE[2022-04-12 06:36:51.549][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-04-12 06:36:51.552][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-04-12 06:36:51.554][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv).
biodb.INFO [2022-04-12 06:36:52.302][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-04-12 06:36:52.303][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:36:52.304][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:36:52.305][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:36:52.306][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:36:52.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:36:52.308][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:36:52.309][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[2022-04-12 06:36:52.310][scheduler$sendRequest] Getting content of get URL request "https://www.lipidmaps.org/databases/lmsd/LMFA08040013?format=tsv".
biodb.DEBUG[2022-04-12 06:36:52.312][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:36:52.313][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:36:52.314][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/LMFA08040013?format=tsv".
biodb.TRACE[2022-04-12 06:36:52.969][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/databases/lmsd/LMFA08040013?format=tsv).
biodb.DEBUG[2022-04-12 06:36:53.714][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-04-12 06:36:53.735][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/0fdeb15a49cfc75bfed9dd3f524ffa41.content"
biodb.TRACE[2022-04-12 06:36:53.781][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/0fdeb15a49cfc75bfed9dd3f524ffa41.request"
biodb.TRACE[2022-04-12 06:36:53.807][private$doSaveContentToFile] Saving to cache [2]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/WRONGB.tsv, /home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA08040013.tsv"
biodb.DEBUG[2022-04-12 06:36:53.816][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-04-12 06:36:53.837][self$createEntryFromContent] Creating LIPID MAPS Structure entries from 2 content(s).
biodb.DEBUG[2022-04-12 06:36:53.838][self$createEntryFromContent] Parsing 2 LIPID MAPS Structure entries.
biodb.DEBUG[2022-04-12 06:36:53.840][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:36:53.841][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:36:53.842][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:36:53.843][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:36:53.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:36:53.845][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:36:53.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-04-12 06:36:53.847][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:53.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:53.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:53.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:53.851][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:53.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:53.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:53.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:53.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:53.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:53.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:53.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:36:53.859][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:36:53.859][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:36:53.860][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:36:53.862][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:36:53.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:36:53.864][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:36:53.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-04-12 06:36:53.868][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:53.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:53.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:53.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:53.872][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:53.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:53.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:53.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:53.886][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:36:53.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:36:53.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:53.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:53.890][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:36:53.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:36:53.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:53.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:53.915][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:36:53.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:36:53.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:53.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:53.919][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:36:53.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:36:53.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:53.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:53.932][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:36:53.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:36:53.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:53.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:53.937][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:36:53.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:36:53.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:53.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:53.949][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:36:53.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:36:53.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:53.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:53.953][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:36:53.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:36:53.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:53.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:53.965][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:36:53.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:36:53.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:53.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:53.969][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:36:53.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:36:53.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:53.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:53.982][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-04-12 06:36:53.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:36:53.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:53.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:53.986][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-04-12 06:36:53.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:36:53.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:53.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:53.999][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:36:54.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:36:54.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:54.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:54.003][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:36:54.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:36:54.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:54.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:54.017][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:36:54.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:36:54.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:54.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:54.021][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:36:54.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:36:54.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:54.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:54.035][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-04-12 06:36:54.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:36:54.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:54.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:54.039][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2022-04-12 06:36:54.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:36:54.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:54.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:54.043][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:36:54.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:36:54.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:54.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:54.047][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:36:54.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:36:54.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:54.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:54.051][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-04-12 06:36:54.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:36:54.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:54.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:54.075][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:36:54.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:36:54.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:54.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:54.079][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:36:54.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:36:54.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:54.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:54.082][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:36:54.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:36:54.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:54.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:54.086][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:36:54.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:36:54.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:54.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:54.090][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:36:54.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:36:54.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:54.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:54.103][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:54.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:54.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:54.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:54.107][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:54.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:54.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:54.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:54.111][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:54.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:54.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:54.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:54.115][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:54.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:36:54.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:54.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:54.118][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:54.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:54.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:54.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:54.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:54.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:54.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:54.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:54.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:54.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:54.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:54.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:54.139][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:54.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:54.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:54.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:54.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:54.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:54.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:54.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:54.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:54.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:54.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:54.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:54.156][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:54.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:54.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:54.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:54.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:54.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:54.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:54.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:54.167][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:54.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:54.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:54.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:54.173][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:54.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:54.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:54.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:36:54.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:36:54.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:36:54.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:36:54.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:36:54.184][self$createEntryFromContent] Accession numbers: NA, LMFA08040013.
biodb.DEBUG[2022-04-12 06:36:54.185][self$createEntryFromContent] Found %d entry/ies without an accession number. Set it/them to NULL.1
biodb.DEBUG[2022-04-12 06:36:54.186][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2022-04-12 06:36:54.204][biodb::testThat] 
biodb.INFO [2022-04-12 06:36:54.205][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2022-04-12 06:36:54.207][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:36:54.208][biodb::testThat] 
biodb.INFO [2022-04-12 06:36:54.240][biodb::testThat] 
biodb.INFO [2022-04-12 06:36:54.241][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2022-04-12 06:36:54.243][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:36:54.244][biodb::testThat] 
biodb.INFO [2022-04-12 06:36:54.267][biodb::testThat] 
biodb.INFO [2022-04-12 06:36:54.268][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2022-04-12 06:36:54.269][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:36:54.270][biodb::testThat] 
biodb.DEBUG[2022-04-12 06:36:54.322][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV".
biodb.DEBUG[2022-04-12 06:36:54.325][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:36:54.326][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:36:54.327][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV".
biodb.TRACE[2022-04-12 06:36:58.720][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV).
biodb.DEBUG[2022-04-12 06:37:08.843][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-04-12 06:37:08.867][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/13e15253cf65619ae7a700f5534f6030.content"
biodb.TRACE[2022-04-12 06:37:08.909][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/13e15253cf65619ae7a700f5534f6030.request"
biodb.INFO [2022-04-12 06:37:09.546][biodb::testThat] 
biodb.INFO [2022-04-12 06:37:09.547][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2022-04-12 06:37:09.548][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:37:09.549][biodb::testThat] 
biodb.ERROR[2022-04-12 06:37:09.565][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2022-04-12 06:37:09.579][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2022-04-12 06:37:09.588][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2022-04-12 06:37:09.590][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector lipidmaps.structure from the request scheduler
biodb.INFO [2022-04-12 06:37:09.591][self$deleteConn] Connector "lipidmaps.structure" deleted.
biodb.DEBUG[2022-04-12 06:37:09.592][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-04-12 06:37:09.593][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:09.593][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:09.594][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:09.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:09.596][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:09.597][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.INFO [2022-04-12 06:37:09.606][biodb::testContext] 
biodb.INFO [2022-04-12 06:37:09.607][biodb::testContext] ********************************************************************************
biodb.INFO [2022-04-12 06:37:09.608][biodb::testContext] Test context - Web services tests
biodb.INFO [2022-04-12 06:37:09.609][biodb::testContext] ********************************************************************************
biodb.INFO [2022-04-12 06:37:09.610][biodb::testContext] 
biodb.INFO [2022-04-12 06:37:09.622][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.2.2.
biodb.DEBUG[2022-04-12 06:37:09.624][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.14-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2022-04-12 06:37:09.628][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-04-12 06:37:09.629][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-04-12 06:37:09.630][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-04-12 06:37:09.630][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:09.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:09.632][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:09.633][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-04-12 06:37:09.634][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-04-12 06:37:09.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:09.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:09.636][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[2022-04-12 06:37:09.637][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-04-12 06:37:09.638][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-04-12 06:37:09.639][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:09.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:09.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:09.642][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-04-12 06:37:09.643][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-04-12 06:37:09.644][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-04-12 06:37:09.645][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:09.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:09.647][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[2022-04-12 06:37:09.648][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-04-12 06:37:09.649][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-04-12 06:37:09.650][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-04-12 06:37:09.651][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:09.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:09.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:09.653][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-04-12 06:37:09.654][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-04-12 06:37:09.655][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:09.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:09.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:09.658][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-04-12 06:37:09.659][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-04-12 06:37:09.660][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-04-12 06:37:09.661][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:09.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:09.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:09.663][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-04-12 06:37:09.664][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-04-12 06:37:09.665][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:09.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:09.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:09.668][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-04-12 06:37:09.669][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-04-12 06:37:09.670][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-04-12 06:37:09.670][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:09.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:09.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:09.673][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-04-12 06:37:09.674][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-04-12 06:37:09.675][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-04-12 06:37:09.676][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-04-12 06:37:09.677][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-04-12 06:37:09.678][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-04-12 06:37:09.679][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:09.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:09.680][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[2022-04-12 06:37:09.681][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-04-12 06:37:09.682][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-04-12 06:37:09.683][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:09.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:09.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:09.686][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-04-12 06:37:09.687][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-04-12 06:37:09.688][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:09.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:09.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:09.691][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-04-12 06:37:09.692][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-04-12 06:37:09.693][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:09.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:09.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:09.695][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-04-12 06:37:09.696][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-04-12 06:37:09.697][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:09.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:09.699][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[2022-04-12 06:37:09.700][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-04-12 06:37:09.701][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-04-12 06:37:09.702][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:09.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:09.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:09.705][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-04-12 06:37:09.706][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-04-12 06:37:09.711][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2022-04-12 06:37:09.712][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:09.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:09.714][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[2022-04-12 06:37:09.715][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-04-12 06:37:09.716][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-04-12 06:37:09.718][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-04-12 06:37:09.719][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:09.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:09.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:09.722][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-04-12 06:37:09.724][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-04-12 06:37:09.725][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2022-04-12 06:37:09.726][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:09.727][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-04-12 06:37:09.728][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:09.729][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-04-12 06:37:09.730][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-04-12 06:37:09.731][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-04-12 06:37:09.732][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-04-12 06:37:09.734][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-04-12 06:37:09.735][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:09.736][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-04-12 06:37:09.737][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-04-12 06:37:09.738][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:37:09.739][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:09.740][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-04-12 06:37:09.740][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-04-12 06:37:09.740][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-04-12 06:37:09.740][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-04-12 06:37:09.740][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-04-12 06:37:09.741][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-04-12 06:37:09.742][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:37:09.743][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:37:09.744][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-04-12 06:37:09.745][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:37:09.746][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:37:09.747][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-04-12 06:37:09.749][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:37:09.750][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-04-12 06:37:09.751][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-04-12 06:37:09.752][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-04-12 06:37:09.753][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:37:09.754][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-04-12 06:37:09.756][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-04-12 06:37:09.757][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-04-12 06:37:09.758][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:09.759][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-04-12 06:37:09.760][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:09.761][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-04-12 06:37:09.762][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-04-12 06:37:09.763][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-04-12 06:37:09.764][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-04-12 06:37:09.765][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-04-12 06:37:09.766][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:09.767][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-04-12 06:37:09.768][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-04-12 06:37:09.769][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:37:09.770][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:09.771][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-04-12 06:37:09.771][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-04-12 06:37:09.771][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-04-12 06:37:09.771][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-04-12 06:37:09.771][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-04-12 06:37:09.772][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-04-12 06:37:09.773][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:37:09.774][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:37:09.774][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-04-12 06:37:09.775][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:37:09.776][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:37:09.777][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-04-12 06:37:09.778][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:37:09.779][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-04-12 06:37:09.780][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-04-12 06:37:09.781][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-04-12 06:37:09.782][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:37:09.783][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-04-12 06:37:09.785][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:09.786][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2022-04-12 06:37:09.787][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:09.788][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-04-12 06:37:09.789][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:09.790][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-04-12 06:37:09.791][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-04-12 06:37:09.792][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-04-12 06:37:09.793][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-04-12 06:37:09.794][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-04-12 06:37:09.794][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-04-12 06:37:09.795][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-04-12 06:37:09.796][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-04-12 06:37:09.797][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:37:09.798][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:09.799][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:37:09.800][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-04-12 06:37:09.801][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:37:09.802][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:37:09.803][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-04-12 06:37:09.804][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:37:09.805][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:37:09.806][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-04-12 06:37:09.806][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:37:09.807][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-04-12 06:37:09.808][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-04-12 06:37:09.809][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-04-12 06:37:09.810][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:37:09.811][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-04-12 06:37:09.813][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:09.814][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-04-12 06:37:09.815][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:09.816][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-04-12 06:37:09.817][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:09.818][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-04-12 06:37:09.819][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-04-12 06:37:09.820][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-04-12 06:37:09.821][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-04-12 06:37:09.822][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-04-12 06:37:09.822][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-04-12 06:37:09.823][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-04-12 06:37:09.824][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-04-12 06:37:09.825][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:37:09.826][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:09.827][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:37:09.828][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-04-12 06:37:09.829][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:37:09.830][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:37:09.831][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-04-12 06:37:09.832][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:37:09.832][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:37:09.833][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-04-12 06:37:09.834][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:37:09.835][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-04-12 06:37:09.836][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-04-12 06:37:09.837][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-04-12 06:37:09.838][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:37:09.839][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-04-12 06:37:09.840][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:09.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:09.842][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:09.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:09.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:09.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:09.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:09.847][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:09.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:09.848][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:09.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:09.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:09.851][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:09.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:09.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:09.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:09.855][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[2022-04-12 06:37:09.856][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:09.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:09.858][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:09.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:09.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:09.861][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:09.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:09.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:09.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:09.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:09.865][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:09.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:09.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:09.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:09.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:09.870][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:09.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:09.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:09.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:09.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:09.874][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:09.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:09.896][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:09.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:09.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:09.900][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:09.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:09.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:09.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:09.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:09.904][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:09.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:09.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:09.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:09.908][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[2022-04-12 06:37:09.909][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:09.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:09.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:09.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:09.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:09.913][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:09.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:09.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:09.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:09.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:09.918][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:09.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:09.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:09.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:09.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:09.922][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:09.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:09.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:09.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:09.925][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[2022-04-12 06:37:09.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:09.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:09.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:09.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:09.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:09.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:09.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:09.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:09.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:09.934][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[2022-04-12 06:37:09.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:09.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:09.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:09.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:09.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:09.939][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-04-12 06:37:09.941][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-04-12 06:37:09.942][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-04-12 06:37:09.943][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-04-12 06:37:09.945][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-04-12 06:37:09.946][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-04-12 06:37:09.948][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-04-12 06:37:09.949][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-04-12 06:37:09.950][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-04-12 06:37:09.951][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-04-12 06:37:09.953][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-04-12 06:37:09.954][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-04-12 06:37:09.955][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-04-12 06:37:09.956][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-04-12 06:37:09.958][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-04-12 06:37:09.959][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-04-12 06:37:09.960][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-04-12 06:37:09.961][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-04-12 06:37:09.963][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-04-12 06:37:09.964][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-04-12 06:37:09.965][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-04-12 06:37:09.967][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-04-12 06:37:09.968][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-04-12 06:37:09.969][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-04-12 06:37:09.971][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-04-12 06:37:09.972][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-04-12 06:37:09.973][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-04-12 06:37:09.974][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-04-12 06:37:09.976][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-04-12 06:37:09.977][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-04-12 06:37:09.978][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-04-12 06:37:09.980][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-04-12 06:37:09.981][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-04-12 06:37:09.982][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-04-12 06:37:09.983][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-04-12 06:37:09.985][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-04-12 06:37:09.986][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-04-12 06:37:09.987][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-04-12 06:37:09.989][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-04-12 06:37:09.990][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-04-12 06:37:09.991][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-04-12 06:37:09.992][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-04-12 06:37:09.994][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-04-12 06:37:09.995][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-04-12 06:37:09.996][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-04-12 06:37:09.998][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-04-12 06:37:09.999][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-04-12 06:37:10.001][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-04-12 06:37:10.002][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-04-12 06:37:10.003][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-04-12 06:37:10.005][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-04-12 06:37:10.006][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-04-12 06:37:10.007][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-04-12 06:37:10.009][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-04-12 06:37:10.010][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-04-12 06:37:10.011][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-04-12 06:37:10.013][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-04-12 06:37:10.014][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-04-12 06:37:10.015][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-04-12 06:37:10.017][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-04-12 06:37:10.018][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-04-12 06:37:10.019][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-04-12 06:37:10.021][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-04-12 06:37:10.022][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-04-12 06:37:10.023][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-04-12 06:37:10.025][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-04-12 06:37:10.026][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-04-12 06:37:10.028][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-04-12 06:37:10.029][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-04-12 06:37:10.031][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-04-12 06:37:10.032][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-04-12 06:37:10.034][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-04-12 06:37:10.035][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-04-12 06:37:10.037][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-04-12 06:37:10.038][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-04-12 06:37:10.040][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-04-12 06:37:10.041][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-04-12 06:37:10.042][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-04-12 06:37:10.044][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-04-12 06:37:10.045][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-04-12 06:37:10.047][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-04-12 06:37:10.048][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-04-12 06:37:10.050][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-04-12 06:37:10.056][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-04-12 06:37:10.058][initialize] This is biodb version 1.2.2.
biodb.DEBUG[2022-04-12 06:37:10.059][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-04-12 06:37:10.060][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:10.061][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:10.062][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:10.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:10.064][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:10.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:10.066][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:10.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:10.067][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:10.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:10.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:10.070][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:10.071][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:10.072][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:10.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:10.074][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:10.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:10.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:10.076][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:10.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:10.078][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:10.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:10.080][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:10.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:10.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:10.082][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:10.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:10.084][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:10.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:10.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:10.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:10.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:10.089][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:10.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:10.090][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:10.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:10.092][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:10.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:10.094][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:10.095][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:10.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:10.097][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:10.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:10.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:10.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:10.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:10.101][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:10.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:10.103][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:10.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:10.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:10.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:10.106][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[2022-04-12 06:37:10.107][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:10.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:10.108][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:10.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:10.110][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:10.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:10.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:10.113][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:10.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:10.114][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:10.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:10.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:10.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:10.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:10.119][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:10.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:10.120][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:10.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:10.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:10.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:10.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:10.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:10.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:10.126][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:10.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:10.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:10.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:10.130][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[2022-04-12 06:37:10.131][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:10.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:10.132][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:10.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:10.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:10.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:10.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:10.137][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:10.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:10.139][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:10.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:10.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:10.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:10.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:10.143][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:10.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:10.145][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:10.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:10.146][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:10.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:10.148][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:10.149][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:10.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:10.151][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:10.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:10.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:10.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:10.154][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[2022-04-12 06:37:10.155][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:10.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:10.157][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:10.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:10.158][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:10.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:10.160][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[2022-04-12 06:37:10.161][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:10.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:10.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:10.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:10.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:10.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:10.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:10.168][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.14-bioc/R/library/biodbLipidmaps/definitions.yml".
biodb.DEBUG[2022-04-12 06:37:10.169][self$getDbsInfo()$define] Define connector lipidmaps.structure.
biodb.DEBUG[2022-04-12 06:37:10.171][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-04-12 06:37:10.172][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2022-04-12 06:37:10.173][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:10.174][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-04-12 06:37:10.175][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:10.176][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-04-12 06:37:10.177][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:10.178][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-04-12 06:37:10.179][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-04-12 06:37:10.180][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-04-12 06:37:10.181][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:10.182][self$setPropertyValue] Setting property "name" to "LIPID MAPS Structure".
biodb.DEBUG[2022-04-12 06:37:10.183][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-04-12 06:37:10.184][self$setPropertyValue] Setting property "parsing.expr" to "LM_ID".
biodb.DEBUG[2022-04-12 06:37:10.184][self$setPropertyValue] Setting property "parsing.expr" to "CHEBI_ID".
biodb.DEBUG[2022-04-12 06:37:10.184][self$setPropertyValue] Setting property "parsing.expr" to "HMDBID".
biodb.DEBUG[2022-04-12 06:37:10.184][self$setPropertyValue] Setting property "parsing.expr" to "KEGG_ID".
biodb.DEBUG[2022-04-12 06:37:10.184][self$setPropertyValue] Setting property "parsing.expr" to "PUBCHEM_COMPOUND_ID".
biodb.DEBUG[2022-04-12 06:37:10.184][self$setPropertyValue] Setting property "parsing.expr" to "SYSTEMATIC_NAME".
biodb.DEBUG[2022-04-12 06:37:10.184][self$setPropertyValue] Setting property "parsing.expr" to "MASS".
biodb.DEBUG[2022-04-12 06:37:10.184][self$setPropertyValue] Setting property "parsing.expr" to "FORMULA".
biodb.DEBUG[2022-04-12 06:37:10.184][self$setPropertyValue] Setting property "parsing.expr" to "COMMON_NAME".
biodb.DEBUG[2022-04-12 06:37:10.185][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2022-04-12 06:37:10.186][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-04-12 06:37:10.186][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-04-12 06:37:10.187][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-04-12 06:37:10.188][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:37:10.189][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:37:10.190][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-04-12 06:37:10.191][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:37:10.192][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:37:10.193][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-04-12 06:37:10.194][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/data/".
biodb.DEBUG[2022-04-12 06:37:10.194][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/databases/lmsd/".
biodb.DEBUG[2022-04-12 06:37:10.195][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-04-12 06:37:10.196][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-04-12 06:37:10.196][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:10.197][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:37:10.199][self$getEntryFields()$define] Define field lipidmaps.structure.id.
biodb.DEBUG[2022-04-12 06:37:10.200][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-04-12 06:37:10.203][initialize] Initialize connector lipidmaps.structure.
biodb.DEBUG[2022-04-12 06:37:10.204][initialize] Register connector lipidmaps.structure with the request scheduler
biodb.DEBUG[2022-04-12 06:37:10.205][private$bdb$getRequestScheduler()$re ...] Register connector lipidmaps.structure.
biodb.DEBUG[2022-04-12 06:37:10.207][private$addConnectorRules] Create new rule for URL "www.lipidmaps.org" of connector "lipidmaps.structure".
biodb.DEBUG[2022-04-12 06:37:10.208][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2022-04-12 06:37:10.209][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2022-04-12 06:37:10.210][rule$addConnector] Connector "lipidmaps.structure" is already listed in rule "www.lipidmaps.org".
biodb.DEBUG[2022-04-12 06:37:10.211][biodb$getFactory()$createConn] Creating new connector lipidmaps.structure for database class lipidmaps.structure .
biodb.INFO [2022-04-12 06:37:10.213][biodb::testThat] 
biodb.INFO [2022-04-12 06:37:10.233][biodb::testThat] Running test function  test_wsLmsdRecord_searchByName  (" wsLmsdRecord() can search by name. ").
biodb.INFO [2022-04-12 06:37:10.234][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:37:10.235][biodb::testThat] 
biodb.DEBUG[2022-04-12 06:37:10.292][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[2022-04-12 06:37:10.296][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:37:10.297][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:37:10.298][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=anhydride".
biodb.TRACE[2022-04-12 06:37:10.970][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=anhydride).
biodb.DEBUG[2022-04-12 06:37:11.679][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-04-12 06:37:11.701][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/cfd52aa1c2e3525a5defd7b7e8bd8bb8.content"
biodb.TRACE[2022-04-12 06:37:11.735][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/cfd52aa1c2e3525a5defd7b7e8bd8bb8.request"
biodb.DEBUG[2022-04-12 06:37:11.826][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=fatty".
biodb.DEBUG[2022-04-12 06:37:11.829][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:37:11.830][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:37:11.845][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=fatty".
biodb.TRACE[2022-04-12 06:37:12.524][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=fatty).
biodb.DEBUG[2022-04-12 06:37:13.299][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-04-12 06:37:13.331][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/4ae22a112f570b93d2a956448ab71bd0.content"
biodb.TRACE[2022-04-12 06:37:13.378][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/4ae22a112f570b93d2a956448ab71bd0.request"
biodb.INFO [2022-04-12 06:37:13.398][biodb::testThat] 
biodb.INFO [2022-04-12 06:37:13.399][biodb::testThat] Running test function  test_wsLmsdRecord  (" Test web service wsLmsdRecord. ").
biodb.INFO [2022-04-12 06:37:13.400][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:37:13.401][biodb::testThat] 
biodb.INFO [2022-04-12 06:37:13.421][biodb::testThat] 
biodb.INFO [2022-04-12 06:37:13.422][biodb::testThat] Running test function  test_wsLmsdSearch  (" Test web service wsLmsdSearch. ").
biodb.INFO [2022-04-12 06:37:13.423][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:37:13.424][biodb::testThat] 
biodb.DEBUG[2022-04-12 06:37:13.485][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[2022-04-12 06:37:13.488][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:37:13.490][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:37:13.491][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&LMID=LMSL02000001".
biodb.TRACE[2022-04-12 06:37:14.035][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&LMID=LMSL02000001).
biodb.DEBUG[2022-04-12 06:37:14.604][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-04-12 06:37:14.629][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/cb051dd8deddba61124ac06645747646.content"
biodb.TRACE[2022-04-12 06:37:14.667][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/cb051dd8deddba61124ac06645747646.request"
biodb.DEBUG[2022-04-12 06:37:14.739][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&LMID=LMSL02000001".
biodb.DEBUG[2022-04-12 06:37:14.742][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-04-12 06:37:14.744][cch$loadFileContent] Trying to load 1 files from cache: [1]: "cb051dd8deddba61124ac06645747646".
biodb.TRACE[2022-04-12 06:37:14.745][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-04-12 06:37:14.747][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/cb051dd8deddba61124ac06645747646.content".
biodb.DEBUG[2022-04-12 06:37:14.809][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&LMID=LMSL02000001".
biodb.DEBUG[2022-04-12 06:37:14.813][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:37:14.814][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:37:14.815][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&LMID=LMSL02000001".
biodb.TRACE[2022-04-12 06:37:15.346][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&LMID=LMSL02000001).
biodb.DEBUG[2022-04-12 06:37:15.901][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-04-12 06:37:15.925][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/9edcc233717c530cf0cbf5f73b9c3fc7.content"
biodb.TRACE[2022-04-12 06:37:15.958][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/9edcc233717c530cf0cbf5f73b9c3fc7.request"
biodb.DEBUG[2022-04-12 06:37:16.031][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[2022-04-12 06:37:16.034][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:37:16.035][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:37:16.037][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&Name=acid".
biodb.TRACE[2022-04-12 06:37:17.397][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&Name=acid).
biodb.DEBUG[2022-04-12 06:37:20.752][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-04-12 06:37:20.774][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/be9130a77f849b73da505cd10830451e.content"
biodb.TRACE[2022-04-12 06:37:20.807][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/be9130a77f849b73da505cd10830451e.request"
biodb.DEBUG[2022-04-12 06:37:20.918][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&Name=acid&ExactMass=60.8&ExactMassOffSet=6".
biodb.DEBUG[2022-04-12 06:37:20.921][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:37:20.923][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:37:20.924][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&Name=acid&ExactMass=60.8&ExactMassOffSet=6".
biodb.TRACE[2022-04-12 06:37:22.285][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&Name=acid&ExactMass=60.8&ExactMassOffSet=6).
biodb.DEBUG[2022-04-12 06:37:25.541][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-04-12 06:37:25.563][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/6821b039f49696a2484834eb67daa971.content"
biodb.TRACE[2022-04-12 06:37:25.594][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/6821b039f49696a2484834eb67daa971.request"
biodb.INFO [2022-04-12 06:37:25.647][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2022-04-12 06:37:25.648][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector lipidmaps.structure from the request scheduler
biodb.INFO [2022-04-12 06:37:25.649][self$deleteConn] Connector "lipidmaps.structure" deleted.
biodb.DEBUG[2022-04-12 06:37:25.650][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-04-12 06:37:25.651][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:25.652][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:25.652][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:25.653][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:25.654][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:25.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2022-04-12 06:37:25.658][biodb::testContext] 
biodb.INFO [2022-04-12 06:37:25.659][biodb::testContext] ********************************************************************************
biodb.INFO [2022-04-12 06:37:25.660][biodb::testContext] Test context - Some other custom tests
biodb.INFO [2022-04-12 06:37:25.661][biodb::testContext] ********************************************************************************
biodb.INFO [2022-04-12 06:37:25.662][biodb::testContext] 
biodb.INFO [2022-04-12 06:37:25.673][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.2.2.
biodb.DEBUG[2022-04-12 06:37:25.675][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.14-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2022-04-12 06:37:25.679][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-04-12 06:37:25.680][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-04-12 06:37:25.681][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-04-12 06:37:25.682][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:25.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:25.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:25.684][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-04-12 06:37:25.685][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-04-12 06:37:25.686][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:25.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:25.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:25.688][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-04-12 06:37:25.689][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-04-12 06:37:25.690][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:25.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:25.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:25.692][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-04-12 06:37:25.693][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-04-12 06:37:25.694][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-04-12 06:37:25.695][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:25.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:25.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:25.698][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-04-12 06:37:25.698][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-04-12 06:37:25.699][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-04-12 06:37:25.700][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:25.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:25.702][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:25.703][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-04-12 06:37:25.704][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-04-12 06:37:25.704][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:25.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:25.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:25.707][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-04-12 06:37:25.708][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-04-12 06:37:25.709][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-04-12 06:37:25.710][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:25.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:25.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:25.712][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-04-12 06:37:25.713][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-04-12 06:37:25.714][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:25.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:25.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:25.717][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-04-12 06:37:25.717][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-04-12 06:37:25.718][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-04-12 06:37:25.719][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:25.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:25.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:25.722][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-04-12 06:37:25.723][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-04-12 06:37:25.724][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-04-12 06:37:25.725][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-04-12 06:37:25.726][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-04-12 06:37:25.727][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-04-12 06:37:25.727][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:25.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:25.729][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[2022-04-12 06:37:25.730][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-04-12 06:37:25.731][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-04-12 06:37:25.732][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:25.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:25.733][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:25.734][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-04-12 06:37:25.735][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-04-12 06:37:25.736][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:25.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:25.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:25.739][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-04-12 06:37:25.740][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-04-12 06:37:25.740][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:25.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:25.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:25.743][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-04-12 06:37:25.744][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-04-12 06:37:25.745][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:25.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:25.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:25.747][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-04-12 06:37:25.748][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-04-12 06:37:25.749][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:25.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:25.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:25.752][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-04-12 06:37:25.753][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-04-12 06:37:25.758][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2022-04-12 06:37:25.759][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:25.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:25.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:25.761][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-04-12 06:37:25.762][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-04-12 06:37:25.763][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-04-12 06:37:25.764][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:25.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:25.766][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:25.767][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-04-12 06:37:25.769][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-04-12 06:37:25.770][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2022-04-12 06:37:25.771][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:25.771][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-04-12 06:37:25.772][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:25.773][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-04-12 06:37:25.774][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-04-12 06:37:25.775][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-04-12 06:37:25.776][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-04-12 06:37:25.777][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-04-12 06:37:25.778][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:25.779][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-04-12 06:37:25.780][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-04-12 06:37:25.781][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:37:25.782][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:25.782][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-04-12 06:37:25.782][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-04-12 06:37:25.782][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-04-12 06:37:25.782][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-04-12 06:37:25.782][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-04-12 06:37:25.783][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-04-12 06:37:25.784][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:37:25.785][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:37:25.786][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-04-12 06:37:25.787][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:37:25.788][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:37:25.789][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-04-12 06:37:25.790][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:37:25.791][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-04-12 06:37:25.791][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-04-12 06:37:25.792][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-04-12 06:37:25.793][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:37:25.794][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-04-12 06:37:25.796][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-04-12 06:37:25.797][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-04-12 06:37:25.798][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:25.799][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-04-12 06:37:25.800][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:25.801][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-04-12 06:37:25.802][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-04-12 06:37:25.803][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-04-12 06:37:25.804][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-04-12 06:37:25.805][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-04-12 06:37:25.806][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:25.807][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-04-12 06:37:25.808][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-04-12 06:37:25.809][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:37:25.810][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:25.810][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-04-12 06:37:25.810][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-04-12 06:37:25.810][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-04-12 06:37:25.810][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-04-12 06:37:25.810][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-04-12 06:37:25.811][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-04-12 06:37:25.812][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:37:25.813][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:37:25.814][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-04-12 06:37:25.815][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:37:25.816][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:37:25.817][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-04-12 06:37:25.818][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:37:25.818][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-04-12 06:37:25.819][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-04-12 06:37:25.820][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-04-12 06:37:25.821][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:37:25.822][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-04-12 06:37:25.824][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:25.825][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2022-04-12 06:37:25.826][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:25.827][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-04-12 06:37:25.828][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:25.829][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-04-12 06:37:25.829][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-04-12 06:37:25.830][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-04-12 06:37:25.831][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-04-12 06:37:25.832][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-04-12 06:37:25.833][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-04-12 06:37:25.834][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-04-12 06:37:25.835][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-04-12 06:37:25.836][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:37:25.837][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:25.838][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:37:25.839][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-04-12 06:37:25.840][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:37:25.841][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:37:25.842][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-04-12 06:37:25.843][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:37:25.843][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:37:25.844][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-04-12 06:37:25.845][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:37:25.846][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-04-12 06:37:25.847][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-04-12 06:37:25.848][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-04-12 06:37:25.849][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:37:25.850][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-04-12 06:37:25.852][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:25.853][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-04-12 06:37:25.854][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:25.855][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-04-12 06:37:25.856][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:25.857][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-04-12 06:37:25.858][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-04-12 06:37:25.859][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-04-12 06:37:25.860][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-04-12 06:37:25.861][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-04-12 06:37:25.862][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-04-12 06:37:25.863][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-04-12 06:37:25.864][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-04-12 06:37:25.865][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:37:25.866][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:25.867][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:37:25.868][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-04-12 06:37:25.869][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:37:25.870][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:37:25.871][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-04-12 06:37:25.872][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:37:25.873][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:37:25.874][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-04-12 06:37:25.875][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:37:25.876][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-04-12 06:37:25.877][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-04-12 06:37:25.878][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-04-12 06:37:25.879][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:37:25.880][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-04-12 06:37:25.895][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:25.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:25.897][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:25.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:25.898][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:25.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:25.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:25.901][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:25.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:25.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:25.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:25.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:25.905][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:25.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:25.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:25.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:25.908][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[2022-04-12 06:37:25.909][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:25.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:25.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:25.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:25.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:25.913][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:25.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:25.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:25.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:25.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:25.917][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:25.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:25.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:25.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:25.920][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[2022-04-12 06:37:25.921][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:25.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:25.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:25.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:25.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:25.925][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:25.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:25.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:25.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:25.928][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[2022-04-12 06:37:25.929][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:25.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:25.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:25.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:25.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:25.933][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:25.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:25.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:25.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:25.936][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[2022-04-12 06:37:25.936][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:25.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:25.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:25.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:25.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:25.940][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:25.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:25.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:25.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:25.944][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[2022-04-12 06:37:25.944][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:25.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:25.946][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:25.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:25.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:25.948][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:25.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:25.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:25.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:25.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:25.952][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:25.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:25.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:25.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:25.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:25.956][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:25.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:25.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:25.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:25.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:25.960][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:25.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:25.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:25.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:25.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:25.964][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-04-12 06:37:25.966][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-04-12 06:37:25.967][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-04-12 06:37:25.968][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-04-12 06:37:25.970][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-04-12 06:37:25.971][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-04-12 06:37:25.972][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-04-12 06:37:25.974][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-04-12 06:37:25.975][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-04-12 06:37:25.976][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-04-12 06:37:25.978][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-04-12 06:37:25.979][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-04-12 06:37:25.980][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-04-12 06:37:25.981][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-04-12 06:37:25.983][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-04-12 06:37:25.984][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-04-12 06:37:25.985][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-04-12 06:37:25.987][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-04-12 06:37:25.988][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-04-12 06:37:25.989][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-04-12 06:37:25.990][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-04-12 06:37:25.992][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-04-12 06:37:25.993][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-04-12 06:37:25.994][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-04-12 06:37:25.996][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-04-12 06:37:25.997][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-04-12 06:37:25.998][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-04-12 06:37:25.999][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-04-12 06:37:26.001][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-04-12 06:37:26.002][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-04-12 06:37:26.003][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-04-12 06:37:26.004][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-04-12 06:37:26.006][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-04-12 06:37:26.007][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-04-12 06:37:26.008][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-04-12 06:37:26.009][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-04-12 06:37:26.011][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-04-12 06:37:26.012][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-04-12 06:37:26.013][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-04-12 06:37:26.015][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-04-12 06:37:26.016][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-04-12 06:37:26.017][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-04-12 06:37:26.019][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-04-12 06:37:26.020][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-04-12 06:37:26.021][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-04-12 06:37:26.022][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-04-12 06:37:26.024][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-04-12 06:37:26.025][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-04-12 06:37:26.026][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-04-12 06:37:26.028][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-04-12 06:37:26.029][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-04-12 06:37:26.030][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-04-12 06:37:26.032][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-04-12 06:37:26.033][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-04-12 06:37:26.034][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-04-12 06:37:26.035][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-04-12 06:37:26.037][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-04-12 06:37:26.038][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-04-12 06:37:26.039][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-04-12 06:37:26.041][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-04-12 06:37:26.042][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-04-12 06:37:26.043][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-04-12 06:37:26.044][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-04-12 06:37:26.046][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-04-12 06:37:26.047][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-04-12 06:37:26.048][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-04-12 06:37:26.050][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-04-12 06:37:26.051][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-04-12 06:37:26.052][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-04-12 06:37:26.053][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-04-12 06:37:26.055][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-04-12 06:37:26.056][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-04-12 06:37:26.057][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-04-12 06:37:26.059][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-04-12 06:37:26.060][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-04-12 06:37:26.061][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-04-12 06:37:26.062][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-04-12 06:37:26.064][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-04-12 06:37:26.065][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-04-12 06:37:26.066][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-04-12 06:37:26.067][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-04-12 06:37:26.069][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-04-12 06:37:26.070][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-04-12 06:37:26.076][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-04-12 06:37:26.078][initialize] This is biodb version 1.2.2.
biodb.DEBUG[2022-04-12 06:37:26.079][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-04-12 06:37:26.080][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:26.080][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:26.081][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:26.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:26.083][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:26.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:26.085][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:26.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:26.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:26.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:26.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:26.089][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:26.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:26.090][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:26.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:26.092][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:26.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:26.094][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:26.094][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:26.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:26.096][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:26.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:26.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:26.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:26.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:26.100][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:26.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:26.102][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:26.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:26.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:26.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:26.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:26.106][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:26.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:26.108][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:26.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:26.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:26.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:26.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:26.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:26.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:26.114][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:26.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:26.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:26.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:26.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:26.118][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:26.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:26.120][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:26.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:26.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:26.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:26.123][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.DEBUG[2022-04-12 06:37:26.124][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:26.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:26.126][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:26.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:26.127][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:26.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:26.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:26.130][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:26.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:26.132][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:26.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:26.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:26.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:26.135][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[2022-04-12 06:37:26.136][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:26.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:26.137][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:26.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:26.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:26.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:26.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:26.141][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:26.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:26.143][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:26.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:26.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:26.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:26.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:26.147][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:26.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:26.148][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:26.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:26.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:26.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:26.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:26.152][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:26.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:26.154][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:26.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:26.156][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:26.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:26.157][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:26.158][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:26.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:26.160][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:26.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:26.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:26.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:26.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-04-12 06:37:26.164][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:26.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:26.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:26.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:26.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:26.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:26.169][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[2022-04-12 06:37:26.169][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:26.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:26.171][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:26.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:26.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:26.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:26.174][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[2022-04-12 06:37:26.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-04-12 06:37:26.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:26.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:26.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:26.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:26.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:26.180][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[2022-04-12 06:37:26.182][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.14-bioc/R/library/biodbLipidmaps/definitions.yml".
biodb.DEBUG[2022-04-12 06:37:26.183][self$getDbsInfo()$define] Define connector lipidmaps.structure.
biodb.DEBUG[2022-04-12 06:37:26.185][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-04-12 06:37:26.186][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2022-04-12 06:37:26.204][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:26.205][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-04-12 06:37:26.206][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:26.207][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-04-12 06:37:26.208][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:26.209][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-04-12 06:37:26.210][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-04-12 06:37:26.211][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-04-12 06:37:26.212][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:26.213][self$setPropertyValue] Setting property "name" to "LIPID MAPS Structure".
biodb.DEBUG[2022-04-12 06:37:26.214][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-04-12 06:37:26.214][self$setPropertyValue] Setting property "parsing.expr" to "LM_ID".
biodb.DEBUG[2022-04-12 06:37:26.214][self$setPropertyValue] Setting property "parsing.expr" to "CHEBI_ID".
biodb.DEBUG[2022-04-12 06:37:26.214][self$setPropertyValue] Setting property "parsing.expr" to "HMDBID".
biodb.DEBUG[2022-04-12 06:37:26.214][self$setPropertyValue] Setting property "parsing.expr" to "KEGG_ID".
biodb.DEBUG[2022-04-12 06:37:26.214][self$setPropertyValue] Setting property "parsing.expr" to "PUBCHEM_COMPOUND_ID".
biodb.DEBUG[2022-04-12 06:37:26.214][self$setPropertyValue] Setting property "parsing.expr" to "SYSTEMATIC_NAME".
biodb.DEBUG[2022-04-12 06:37:26.214][self$setPropertyValue] Setting property "parsing.expr" to "MASS".
biodb.DEBUG[2022-04-12 06:37:26.214][self$setPropertyValue] Setting property "parsing.expr" to "FORMULA".
biodb.DEBUG[2022-04-12 06:37:26.214][self$setPropertyValue] Setting property "parsing.expr" to "COMMON_NAME".
biodb.DEBUG[2022-04-12 06:37:26.215][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2022-04-12 06:37:26.216][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-04-12 06:37:26.216][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-04-12 06:37:26.217][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-04-12 06:37:26.218][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:37:26.219][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:37:26.220][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-04-12 06:37:26.221][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-04-12 06:37:26.221][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-04-12 06:37:26.222][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-04-12 06:37:26.223][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/data/".
biodb.DEBUG[2022-04-12 06:37:26.223][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/databases/lmsd/".
biodb.DEBUG[2022-04-12 06:37:26.224][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-04-12 06:37:26.225][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-04-12 06:37:26.226][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2022-04-12 06:37:26.227][self$setPropertyValue] 
biodb.DEBUG[2022-04-12 06:37:26.228][self$getEntryFields()$define] Define field lipidmaps.structure.id.
biodb.DEBUG[2022-04-12 06:37:26.229][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-04-12 06:37:26.232][initialize] Initialize connector lipidmaps.structure.
biodb.DEBUG[2022-04-12 06:37:26.233][initialize] Register connector lipidmaps.structure with the request scheduler
biodb.DEBUG[2022-04-12 06:37:26.235][private$bdb$getRequestScheduler()$re ...] Register connector lipidmaps.structure.
biodb.DEBUG[2022-04-12 06:37:26.236][private$addConnectorRules] Create new rule for URL "www.lipidmaps.org" of connector "lipidmaps.structure".
biodb.DEBUG[2022-04-12 06:37:26.237][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2022-04-12 06:37:26.238][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2022-04-12 06:37:26.239][rule$addConnector] Connector "lipidmaps.structure" is already listed in rule "www.lipidmaps.org".
biodb.DEBUG[2022-04-12 06:37:26.240][biodb$getFactory()$createConn] Creating new connector lipidmaps.structure for database class lipidmaps.structure .
biodb.INFO [2022-04-12 06:37:26.241][biodb::testThat] 
biodb.INFO [2022-04-12 06:37:26.242][biodb::testThat] Running test function  test_noOtherConnNeeded  (" No other connector is needed. ").
biodb.INFO [2022-04-12 06:37:26.243][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-04-12 06:37:26.244][biodb::testThat] 
biodb.DEBUG[2022-04-12 06:37:26.297][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[2022-04-12 06:37:26.300][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-04-12 06:37:26.302][cch$loadFileContent] Trying to load 1 files from cache: [1]: "13e15253cf65619ae7a700f5534f6030".
biodb.TRACE[2022-04-12 06:37:26.303][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-04-12 06:37:26.345][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/13e15253cf65619ae7a700f5534f6030.content".
biodb.DEBUG[2022-04-12 06:37:26.951][private$loadEntries] Creating entries from ids [2]: "LMFA00000001, LMFA00000002".
biodb.DEBUG[2022-04-12 06:37:26.952][conn$getEntryContent] Get LIPID MAPS Structure entry content(s) for 2 id(s)...
biodb.TRACE[2022-04-12 06:37:26.954][cch$loadFileContent] Trying to load 2 files from cache: [2]: "LMFA00000001, LMFA00000002".
biodb.TRACE[2022-04-12 06:37:26.955][cch$loadFileContent] file.exist = [2]: "FALSE, TRUE".
biodb.TRACE[2022-04-12 06:37:26.956][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA00000002.tsv".
biodb.DEBUG[2022-04-12 06:37:26.957][conn$getEntryContent] 1 LIPID MAPS Structure entry content(s) loaded from cache.
biodb.DEBUG[2022-04-12 06:37:26.958][conn$getEntryContent] 1 entry content(s) need to be fetched from LIPID MAPS Structure database "https://www.lipidmaps.org/data/".
biodb.DEBUG[2022-04-12 06:37:26.959][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-04-12 06:37:26.960][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-04-12 06:37:26.963][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:37:26.963][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:26.964][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:26.966][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:26.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:26.967][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:26.968][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[2022-04-12 06:37:26.969][scheduler$sendRequest] Getting content of get URL request "https://www.lipidmaps.org/databases/lmsd/LMFA00000001?format=tsv".
biodb.DEBUG[2022-04-12 06:37:26.972][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-04-12 06:37:26.973][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-04-12 06:37:26.974][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/LMFA00000001?format=tsv".
biodb.TRACE[2022-04-12 06:37:27.911][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/databases/lmsd/LMFA00000001?format=tsv).
biodb.DEBUG[2022-04-12 06:37:28.976][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-04-12 06:37:28.999][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f441f4b59d8c1fbcb63f4f502d20d459.content"
biodb.TRACE[2022-04-12 06:37:29.035][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f441f4b59d8c1fbcb63f4f502d20d459.request"
biodb.TRACE[2022-04-12 06:37:29.069][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA00000001.tsv"
biodb.DEBUG[2022-04-12 06:37:29.082][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-04-12 06:37:29.108][self$createEntryFromContent] Creating LIPID MAPS Structure entries from 2 content(s).
biodb.DEBUG[2022-04-12 06:37:29.110][self$createEntryFromContent] Parsing 2 LIPID MAPS Structure entries.
biodb.DEBUG[2022-04-12 06:37:29.112][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:37:29.113][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:29.114][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:29.117][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:29.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:29.118][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:29.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-04-12 06:37:29.125][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:37:29.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:37:29.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:37:29.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:37:29.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.147][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:37:29.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:37:29.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.152][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:37:29.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:37:29.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.156][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:37:29.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:37:29.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.160][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:37:29.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:37:29.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.199][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:37:29.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:37:29.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.216][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:37:29.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:37:29.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.221][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:37:29.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:37:29.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.238][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-04-12 06:37:29.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:37:29.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.243][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-04-12 06:37:29.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:37:29.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.260][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:37:29.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:37:29.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.266][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:37:29.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:37:29.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.281][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:37:29.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:37:29.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.286][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:37:29.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:37:29.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.301][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-04-12 06:37:29.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:37:29.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.305][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2022-04-12 06:37:29.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:37:29.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.310][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:37:29.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:37:29.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.314][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:37:29.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:37:29.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.318][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-04-12 06:37:29.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:37:29.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.333][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:37:29.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:37:29.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.338][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:37:29.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:37:29.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.342][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:37:29.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:37:29.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.347][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:37:29.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:37:29.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.351][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:37:29.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:37:29.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.368][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:37:29.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:37:29.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.373][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:37:29.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:37:29.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.378][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:37:29.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:37:29.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.382][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:37:29.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:37:29.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:37:29.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:37:29.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.390][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:37:29.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:37:29.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:37:29.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:37:29.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:37:29.413][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:37:29.414][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:29.415][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:29.417][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:29.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:29.419][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:29.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-04-12 06:37:29.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:37:29.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:37:29.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:37:29.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:37:29.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.449][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:37:29.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:37:29.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.454][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:37:29.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:37:29.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.470][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:37:29.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-04-12 06:37:29.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.475][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:37:29.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-04-12 06:37:29.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.479][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:37:29.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:37:29.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.483][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:37:29.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:37:29.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.502][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:37:29.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:37:29.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.507][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:37:29.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:37:29.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.528][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-04-12 06:37:29.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:37:29.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.533][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-04-12 06:37:29.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:37:29.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.552][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:37:29.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:37:29.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.557][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:37:29.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:37:29.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.573][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:37:29.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:37:29.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.579][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:37:29.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:37:29.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.594][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-04-12 06:37:29.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:37:29.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.598][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2022-04-12 06:37:29.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:37:29.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.602][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:37:29.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:37:29.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.607][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:37:29.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:37:29.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.630][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-04-12 06:37:29.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:37:29.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.646][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:37:29.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:37:29.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.651][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:37:29.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:37:29.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:37:29.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:37:29.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.658][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:37:29.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:37:29.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.662][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:37:29.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:37:29.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.665][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:37:29.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:37:29.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.669][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:37:29.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:37:29.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.682][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:37:29.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:37:29.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:37:29.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:37:29.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:37:29.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:37:29.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:37:29.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:37:29.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.696][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:37:29.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:37:29.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.700][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:37:29.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:37:29.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-04-12 06:37:29.704][self$createEntryFromContent] Accession numbers: LMFA00000001, LMFA00000002.
biodb.DEBUG[2022-04-12 06:37:29.706][conn$getBiodb()$entriesToDataframe] 2 entrie(s) to convert in data frame.
biodb.DEBUG[2022-04-12 06:37:29.707][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:37:29.708][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:29.709][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:29.711][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:29.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:29.712][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:29.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-04-12 06:37:29.715][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-04-12 06:37:29.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-04-12 06:37:29.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.719][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-04-12 06:37:29.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-04-12 06:37:29.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.723][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-04-12 06:37:29.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-04-12 06:37:29.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.726][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-04-12 06:37:29.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-04-12 06:37:29.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.730][private$selectFields] Fields none
biodb.TRACE[2022-04-12 06:37:29.731][private$selectFields] 
biodb.TRACE[2022-04-12 06:37:29.732][private$selectFields] Fields is null: TRUE
biodb.TRACE[2022-04-12 06:37:29.733][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-04-12 06:37:29.734][private$selectFields] Fields [7]: "accession, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, name, lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:37:29.734][ef$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:37:29.736][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:37:29.736][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.737][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.738][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:37:29.739][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:37:29.740][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.741][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.742][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:37:29.743][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:37:29.744][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.745][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.746][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:37:29.747][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:37:29.748][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.748][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.749][ef$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:37:29.750][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:37:29.751][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.752][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.753][ef$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:37:29.754][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:37:29.755][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.756][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.757][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:37:29.759][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:37:29.760][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.760][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.762][ef$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:37:29.763][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:37:29.764][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.765][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.766][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:37:29.767][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:37:29.768][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.768][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.769][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:37:29.770][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:37:29.771][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.772][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.773][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:37:29.774][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:37:29.775][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.776][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.777][ef$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:37:29.778][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:37:29.779][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.780][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.781][ef$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:37:29.782][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:37:29.783][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.784][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.785][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:37:29.786][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:37:29.787][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.788][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.789][private$selectFields] Fields [7]: "accession, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, name, lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:37:29.790][private$organizeFieldsByGroups] Fields [7]: "accession, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, name, lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:37:29.791][ef$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:37:29.792][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:37:29.793][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.793][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.794][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:37:29.795][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:37:29.796][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.797][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.798][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:37:29.799][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:37:29.800][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.801][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.802][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:37:29.803][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:37:29.804][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.805][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.806][ef$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:37:29.807][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:37:29.808][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.808][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.809][ef$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:37:29.810][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:37:29.811][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.812][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.813][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:37:29.814][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:37:29.815][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.816][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.817][private$organizeFieldsByGroups] Groups [2]: "c("accession", "ncbi.pubchem.comp.id", "comp.iupac.name.syst", "monoisotopic.mass", "formula", "name", "lipidmaps.structure.id"), list()"
biodb.TRACE[2022-04-12 06:37:29.818][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:37:29.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:37:29.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.822][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:37:29.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:37:29.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.826][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:37:29.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:37:29.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.830][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:37:29.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:37:29.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.834][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:37:29.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:37:29.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.838][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:37:29.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:37:29.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.842][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:37:29.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:37:29.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.846][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:37:29.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:37:29.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.850][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:37:29.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:37:29.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.854][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:37:29.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:37:29.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.858][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:37:29.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:37:29.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.862][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:37:29.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:37:29.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.866][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:37:29.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:37:29.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.870][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:37:29.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:37:29.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.874][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:37:29.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:37:29.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.879][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:37:29.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:37:29.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.883][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:37:29.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:37:29.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.887][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:37:29.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:37:29.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.891][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:37:29.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:37:29.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.896][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:37:29.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:37:29.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.900][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:37:29.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:37:29.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.910][private$entriesToListOfDataframes] Entry converted to data frame: [1, 7]: [accession, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, ...] [LMFA00000001, 10930192, 2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride, 626.491025, C40H66O5, ...].
biodb.DEBUG[2022-04-12 06:37:29.911][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-04-12 06:37:29.912][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:29.913][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:29.915][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:29.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:29.917][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:29.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-04-12 06:37:29.932][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-04-12 06:37:29.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-04-12 06:37:29.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.937][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-04-12 06:37:29.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-04-12 06:37:29.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.941][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-04-12 06:37:29.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-04-12 06:37:29.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.946][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-04-12 06:37:29.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-04-12 06:37:29.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.950][private$selectFields] Fields none
biodb.TRACE[2022-04-12 06:37:29.951][private$selectFields] 
biodb.TRACE[2022-04-12 06:37:29.952][private$selectFields] Fields is null: TRUE
biodb.TRACE[2022-04-12 06:37:29.952][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-04-12 06:37:29.953][private$selectFields] Fields [8]: "accession, chebi.id, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, name, lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:37:29.954][ef$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:37:29.956][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:37:29.957][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.974][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.977][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:37:29.978][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:37:29.979][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.980][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.981][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:37:29.982][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:37:29.983][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.984][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.985][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:37:29.986][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:37:29.987][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.988][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.989][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:37:29.990][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:37:29.991][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.992][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.993][ef$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:37:29.994][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:37:29.995][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:29.996][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:29.997][ef$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:37:29.998][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:37:29.999][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.000][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.001][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:37:30.002][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:37:30.003][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.014][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.016][ef$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:37:30.018][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:37:30.019][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.021][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.022][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:37:30.023][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:37:30.024][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.025][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.026][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:37:30.028][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:37:30.029][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.030][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.031][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:37:30.032][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:37:30.033][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.034][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.035][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:37:30.036][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:37:30.037][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.038][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.039][ef$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:37:30.041][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:37:30.042][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.043][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.044][ef$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:37:30.045][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:37:30.046][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.047][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.048][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:37:30.049][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:37:30.051][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.052][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.053][private$selectFields] Fields [8]: "accession, chebi.id, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, name, lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:37:30.054][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, name, lipidmaps.structure.id"
biodb.TRACE[2022-04-12 06:37:30.055][ef$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:37:30.056][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:37:30.057][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.058][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.060][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:37:30.061][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:37:30.062][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.063][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.064][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:37:30.065][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:37:30.066][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.067][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.068][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:37:30.069][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:37:30.070][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.071][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.072][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:37:30.073][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:37:30.074][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.075][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.076][ef$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:37:30.077][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:37:30.078][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.079][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.080][ef$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:37:30.081][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:37:30.082][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.083][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.084][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:37:30.086][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:37:30.086][ef$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.088][ef$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.089][private$organizeFieldsByGroups] Groups [2]: "c("accession", "chebi.id", "ncbi.pubchem.comp.id", "comp.iupac.name.syst", "monoisotopic.mass", "formula", "name", "lipidmaps.structure.id"), list()"
biodb.TRACE[2022-04-12 06:37:30.090][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:37:30.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:37:30.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.094][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:37:30.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:37:30.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.099][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-04-12 06:37:30.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-04-12 06:37:30.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.103][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:37:30.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:37:30.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.107][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:37:30.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:37:30.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.112][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-04-12 06:37:30.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-04-12 06:37:30.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.117][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:37:30.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:37:30.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.121][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:37:30.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:37:30.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.125][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:37:30.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-04-12 06:37:30.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.130][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:37:30.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:37:30.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.134][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:37:30.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:37:30.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.138][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:37:30.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-04-12 06:37:30.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.143][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:37:30.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:37:30.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.147][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:37:30.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:37:30.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.151][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:37:30.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-04-12 06:37:30.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.155][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:37:30.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:37:30.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.159][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:37:30.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:37:30.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.164][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-04-12 06:37:30.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-04-12 06:37:30.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.168][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:37:30.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:37:30.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.172][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:37:30.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:37:30.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.177][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-04-12 06:37:30.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-04-12 06:37:30.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.181][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:37:30.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:37:30.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.185][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:37:30.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:37:30.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.189][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:37:30.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-04-12 06:37:30.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-04-12 06:37:30.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-04-12 06:37:30.198][private$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[2022-04-12 06:37:30.199][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.DEBUG[2022-04-12 06:37:30.200][conn$getBiodb()$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.INFO [2022-04-12 06:37:30.204][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2022-04-12 06:37:30.206][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector lipidmaps.structure from the request scheduler
biodb.INFO [2022-04-12 06:37:30.207][self$deleteConn] Connector "lipidmaps.structure" deleted.
biodb.DEBUG[2022-04-12 06:37:30.208][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-04-12 06:37:30.209][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-04-12 06:37:30.210][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-04-12 06:37:30.211][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-04-12 06:37:30.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-04-12 06:37:30.213][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-04-12 06:37:30.214][FUN] Functions in observer 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 169 ]
> 
> proc.time()
   user  system elapsed 
 24.770   1.566 131.891

Example timings

biodbLipidmaps.Rcheck/biodbLipidmaps-Ex.timings

nameusersystemelapsed
LipidmapsStructureConn1.9230.1402.065
LipidmapsStructureEntry0.4610.0030.463