Back to Multiple platform build/check report for BioC 3.14
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This page was generated on 2022-01-26 13:05:09 -0500 (Wed, 26 Jan 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.1.2 (2021-11-01) -- "Bird Hippie" 4329
tokay2Windows Server 2012 R2 Standardx644.1.2 (2021-11-01) -- "Bird Hippie" 4080
machv2macOS 10.14.6 Mojavex86_644.1.2 (2021-11-01) -- "Bird Hippie" 4141
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? here 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: 2022-01-25 01:55:07 -0500 (Tue, 25 Jan 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 -0500 (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: 2022-01-25 06:35:43 -0500 (Tue, 25 Jan 2022)
EndedAt: 2022-01-25 06:38:28 -0500 (Tue, 25 Jan 2022)
EllapsedTime: 164.9 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 4.1.2 (2021-11-01)
* 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 4.1.2 (2021-11-01) -- "Bird Hippie"
Copyright (C) 2021 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 [2022-01-25 06:36:24.002][biodb::testContext] 
biodb.INFO [2022-01-25 06:36:24.004][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-25 06:36:24.005][biodb::testContext] Test context - Generic tests
biodb.INFO [2022-01-25 06:36:24.007][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-25 06:36:24.007][biodb::testContext] 
biodb.INFO [2022-01-25 06:36:24.025][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.2.2.
biodb.DEBUG[2022-01-25 06:36:24.027][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.14-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2022-01-25 06:36:24.036][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-25 06:36:24.037][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-01-25 06:36:24.038][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-01-25 06:36:24.039][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.042][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-01-25 06:36:24.062][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-01-25 06:36:24.063][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.066][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-01-25 06:36:24.067][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-01-25 06:36:24.068][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.071][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-01-25 06:36:24.072][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-01-25 06:36:24.073][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-01-25 06:36:24.074][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.077][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-01-25 06:36:24.078][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-01-25 06:36:24.079][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-01-25 06:36:24.080][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.083][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-01-25 06:36:24.084][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-01-25 06:36:24.084][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.087][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-01-25 06:36:24.088][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-01-25 06:36:24.089][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-01-25 06:36:24.090][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.093][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-01-25 06:36:24.094][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-01-25 06:36:24.095][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.098][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-01-25 06:36:24.099][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-01-25 06:36:24.100][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-01-25 06:36:24.101][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.103][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-01-25 06:36:24.104][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-01-25 06:36:24.105][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-01-25 06:36:24.106][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-01-25 06:36:24.107][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-01-25 06:36:24.109][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-01-25 06:36:24.109][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.111][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[2022-01-25 06:36:24.112][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-01-25 06:36:24.113][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-01-25 06:36:24.114][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.117][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-01-25 06:36:24.118][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-01-25 06:36:24.119][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.122][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-01-25 06:36:24.123][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-01-25 06:36:24.123][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.126][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-01-25 06:36:24.127][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-01-25 06:36:24.128][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.130][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[2022-01-25 06:36:24.131][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-01-25 06:36:24.132][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-01-25 06:36:24.133][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.135][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-01-25 06:36:24.137][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-01-25 06:36:24.142][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2022-01-25 06:36:24.143][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.146][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-01-25 06:36:24.147][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-01-25 06:36:24.148][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-01-25 06:36:24.149][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.155][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-01-25 06:36:24.191][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-25 06:36:24.212][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2022-01-25 06:36:24.213][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-25 06:36:24.214][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-25 06:36:24.215][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-25 06:36:24.216][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-25 06:36:24.217][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-25 06:36:24.217][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-25 06:36:24.218][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-25 06:36:24.219][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-25 06:36:24.220][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-25 06:36:24.221][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-01-25 06:36:24.222][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-25 06:36:24.223][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:36:24.224][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-25 06:36:24.224][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-25 06:36:24.224][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-25 06:36:24.224][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-25 06:36:24.224][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-25 06:36:24.224][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-25 06:36:24.225][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-25 06:36:24.226][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-25 06:36:24.227][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-25 06:36:24.228][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-25 06:36:24.229][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-25 06:36:24.229][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-25 06:36:24.230][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-25 06:36:24.231][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:36:24.232][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-25 06:36:24.233][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-25 06:36:24.234][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-25 06:36:24.235][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:36:24.236][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-01-25 06:36:24.237][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-25 06:36:24.239][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-01-25 06:36:24.240][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-25 06:36:24.240][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-25 06:36:24.241][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-25 06:36:24.242][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-25 06:36:24.243][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-25 06:36:24.244][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-25 06:36:24.245][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-25 06:36:24.246][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-25 06:36:24.247][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-25 06:36:24.248][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-01-25 06:36:24.249][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-25 06:36:24.250][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:36:24.251][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-25 06:36:24.251][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-25 06:36:24.251][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-25 06:36:24.251][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-25 06:36:24.251][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-25 06:36:24.251][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-25 06:36:24.252][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-25 06:36:24.253][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-25 06:36:24.254][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-25 06:36:24.255][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-25 06:36:24.256][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-25 06:36:24.256][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-25 06:36:24.257][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-25 06:36:24.258][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:36:24.259][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-25 06:36:24.260][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-25 06:36:24.261][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-25 06:36:24.262][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:36:24.263][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-01-25 06:36:24.265][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-25 06:36:24.266][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2022-01-25 06:36:24.267][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-25 06:36:24.268][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-25 06:36:24.268][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-25 06:36:24.269][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-25 06:36:24.270][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-25 06:36:24.271][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-25 06:36:24.272][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-25 06:36:24.273][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-25 06:36:24.274][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-25 06:36:24.275][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-01-25 06:36:24.276][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-25 06:36:24.277][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:36:24.277][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-25 06:36:24.278][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:36:24.279][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-25 06:36:24.280][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-25 06:36:24.281][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-25 06:36:24.282][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-25 06:36:24.283][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-25 06:36:24.284][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-25 06:36:24.284][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-25 06:36:24.285][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:36:24.286][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-25 06:36:24.287][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-25 06:36:24.288][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-25 06:36:24.289][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:36:24.290][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-01-25 06:36:24.291][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-25 06:36:24.292][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-01-25 06:36:24.293][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-25 06:36:24.294][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-25 06:36:24.295][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-25 06:36:24.296][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-25 06:36:24.297][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-25 06:36:24.298][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-25 06:36:24.299][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-25 06:36:24.300][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-25 06:36:24.301][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-25 06:36:24.301][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-01-25 06:36:24.302][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-25 06:36:24.303][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:36:24.304][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-25 06:36:24.305][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:36:24.306][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-25 06:36:24.307][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-25 06:36:24.307][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-25 06:36:24.308][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-25 06:36:24.309][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-25 06:36:24.310][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-25 06:36:24.311][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-25 06:36:24.312][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:36:24.313][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-25 06:36:24.313][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-25 06:36:24.314][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-25 06:36:24.315][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:36:24.319][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-25 06:36:24.320][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.322][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:24.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:24.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.326][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:24.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:24.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.330][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:24.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:24.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:24.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:24.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.338][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:24.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:24.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.342][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:24.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:24.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.345][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[2022-01-25 06:36:24.346][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:24.347][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:24.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.350][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:24.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:24.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.354][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:24.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:24.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.358][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:24.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:24.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.362][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:24.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:24.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.366][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:24.367][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:24.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.370][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:24.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:24.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.373][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:24.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:24.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:24.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:24.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.381][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:24.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:24.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.385][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:24.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:24.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.390][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-01-25 06:36:24.394][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-01-25 06:36:24.396][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-01-25 06:36:24.397][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-01-25 06:36:24.399][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-01-25 06:36:24.400][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-01-25 06:36:24.401][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-01-25 06:36:24.402][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-01-25 06:36:24.404][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-01-25 06:36:24.405][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-01-25 06:36:24.406][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-25 06:36:24.408][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-01-25 06:36:24.409][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-01-25 06:36:24.410][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-01-25 06:36:24.412][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-01-25 06:36:24.413][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-25 06:36:24.414][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-01-25 06:36:24.415][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-01-25 06:36:24.417][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-01-25 06:36:24.418][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-01-25 06:36:24.419][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-01-25 06:36:24.421][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-01-25 06:36:24.422][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-01-25 06:36:24.423][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-01-25 06:36:24.430][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-01-25 06:36:24.431][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-01-25 06:36:24.432][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-01-25 06:36:24.433][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-01-25 06:36:24.435][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-01-25 06:36:24.436][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-01-25 06:36:24.437][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-01-25 06:36:24.438][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-01-25 06:36:24.439][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-01-25 06:36:24.441][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-01-25 06:36:24.442][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-01-25 06:36:24.443][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-01-25 06:36:24.444][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-01-25 06:36:24.446][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-01-25 06:36:24.447][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-01-25 06:36:24.448][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-01-25 06:36:24.450][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-01-25 06:36:24.451][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-01-25 06:36:24.452][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-01-25 06:36:24.453][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-01-25 06:36:24.455][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-01-25 06:36:24.456][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-01-25 06:36:24.457][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-01-25 06:36:24.458][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-01-25 06:36:24.460][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-01-25 06:36:24.461][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-01-25 06:36:24.462][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-01-25 06:36:24.463][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-01-25 06:36:24.465][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-01-25 06:36:24.466][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-01-25 06:36:24.467][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-01-25 06:36:24.468][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-01-25 06:36:24.470][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-01-25 06:36:24.471][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-01-25 06:36:24.472][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-01-25 06:36:24.474][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-01-25 06:36:24.475][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-01-25 06:36:24.476][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-01-25 06:36:24.477][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-01-25 06:36:24.479][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-01-25 06:36:24.480][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-01-25 06:36:24.481][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-01-25 06:36:24.483][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-01-25 06:36:24.484][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-01-25 06:36:24.485][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-01-25 06:36:24.486][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-01-25 06:36:24.488][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-01-25 06:36:24.489][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-01-25 06:36:24.490][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-01-25 06:36:24.492][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-01-25 06:36:24.493][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-01-25 06:36:24.494][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-01-25 06:36:24.496][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-01-25 06:36:24.497][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-01-25 06:36:24.498][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-01-25 06:36:24.499][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-01-25 06:36:24.501][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-01-25 06:36:24.502][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-01-25 06:36:24.503][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-01-25 06:36:24.509][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-01-25 06:36:24.510][initialize] This is biodb version 1.2.2.
biodb.DEBUG[2022-01-25 06:36:24.513][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-25 06:36:24.514][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:24.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:24.515][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.521][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:36:24.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:36:24.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:24.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:24.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.525][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.526][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:36:24.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:36:24.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:24.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:24.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.532][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:36:24.533][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:36:24.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:24.535][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:24.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:36:24.539][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:36:24.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:24.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:24.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.543][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:36:24.544][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:36:24.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:24.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:24.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.548][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:36:24.550][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:36:24.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:24.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:24.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.554][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:36:24.556][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:36:24.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:24.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:24.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.560][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:36:24.561][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:36:24.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:24.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:24.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.564][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.565][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:36:24.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:36:24.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:24.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:24.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.571][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:36:24.572][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:36:24.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:24.574][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:24.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:36:24.578][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:36:24.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:24.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:24.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.582][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:36:24.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:36:24.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:24.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:24.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.588][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:36:24.590][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:36:24.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:24.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:24.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:36:24.595][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:36:24.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:24.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:24.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.599][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:36:24.601][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:36:24.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:24.602][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:24.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.605][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:36:24.606][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:36:24.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:24.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:24.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:36:24.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:36:24.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:36:24.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:24.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:24.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:24.617][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.14-bioc/R/library/biodbLipidmaps/definitions.yml".
biodb.DEBUG[2022-01-25 06:36:24.626][self$getDbsInfo()$define] Define connector lipidmaps.structure.
biodb.DEBUG[2022-01-25 06:36:24.628][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-25 06:36:24.629][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2022-01-25 06:36:24.630][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-25 06:36:24.630][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-25 06:36:24.631][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-25 06:36:24.632][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-25 06:36:24.633][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2022-01-25 06:36:24.637][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-25 06:36:24.638][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-25 06:36:24.639][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-25 06:36:24.640][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-25 06:36:24.641][self$setPropertyValue] Setting property "name" to "LIPID MAPS Structure".
biodb.DEBUG[2022-01-25 06:36:24.642][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-25 06:36:24.643][self$setPropertyValue] Setting property "parsing.expr" to "LM_ID".
biodb.DEBUG[2022-01-25 06:36:24.643][self$setPropertyValue] Setting property "parsing.expr" to "CHEBI_ID".
biodb.DEBUG[2022-01-25 06:36:24.643][self$setPropertyValue] Setting property "parsing.expr" to "HMDBID".
biodb.DEBUG[2022-01-25 06:36:24.643][self$setPropertyValue] Setting property "parsing.expr" to "KEGG_ID".
biodb.DEBUG[2022-01-25 06:36:24.643][self$setPropertyValue] Setting property "parsing.expr" to "PUBCHEM_COMPOUND_ID".
biodb.DEBUG[2022-01-25 06:36:24.643][self$setPropertyValue] Setting property "parsing.expr" to "SYSTEMATIC_NAME".
biodb.DEBUG[2022-01-25 06:36:24.643][self$setPropertyValue] Setting property "parsing.expr" to "MASS".
biodb.DEBUG[2022-01-25 06:36:24.643][self$setPropertyValue] Setting property "parsing.expr" to "FORMULA".
biodb.DEBUG[2022-01-25 06:36:24.643][self$setPropertyValue] Setting property "parsing.expr" to "COMMON_NAME".
biodb.DEBUG[2022-01-25 06:36:24.644][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2022-01-25 06:36:24.644][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-25 06:36:24.644][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-25 06:36:24.645][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-25 06:36:24.646][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-25 06:36:24.647][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-25 06:36:24.648][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-25 06:36:24.649][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-25 06:36:24.650][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-25 06:36:24.651][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-25 06:36:24.652][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/data/".
biodb.DEBUG[2022-01-25 06:36:24.652][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/databases/lmsd/".
biodb.DEBUG[2022-01-25 06:36:24.658][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-25 06:36:24.659][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-25 06:36:24.660][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2022-01-25 06:36:24.661][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:36:24.667][self$getEntryFields()$define] Define field lipidmaps.structure.id.
biodb.DEBUG[2022-01-25 06:36:24.668][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-25 06:36:24.690][initialize] Initialize connector lipidmaps.structure.
biodb.DEBUG[2022-01-25 06:36:24.691][initialize] Register connector lipidmaps.structure with the request scheduler
biodb.DEBUG[2022-01-25 06:36:24.696][private$bdb$getRequestScheduler()$re ...] Register connector lipidmaps.structure.
biodb.DEBUG[2022-01-25 06:36:24.700][private$addConnectorRules] Create new rule for URL "www.lipidmaps.org" of connector "lipidmaps.structure".
biodb.DEBUG[2022-01-25 06:36:24.705][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2022-01-25 06:36:24.706][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2022-01-25 06:36:24.707][rule$addConnector] Connector "lipidmaps.structure" is already listed in rule "www.lipidmaps.org".
biodb.DEBUG[2022-01-25 06:36:24.708][biodb$getFactory()$createConn] Creating new connector lipidmaps.structure for database class lipidmaps.structure .
biodb.INFO [2022-01-25 06:36:24.729][biodb::testThat] 
biodb.INFO [2022-01-25 06:36:24.730][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2022-01-25 06:36:24.731][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-25 06:36:24.732][biodb::testThat] 
biodb.TRACE[2022-01-25 06:36:24.736][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[2022-01-25 06:36:24.741][biodb$getFactory()$createEntryFromCo ...] Creating LIPID MAPS Structure entries from 1 content(s).
biodb.DEBUG[2022-01-25 06:36:24.742][biodb$getFactory()$createEntryFromCo ...] Parsing 1 LIPID MAPS Structure entries.
biodb.DEBUG[2022-01-25 06:36:24.751][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-25 06:36:24.752][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:36:24.753][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:36:24.755][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:24.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:24.757][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:24.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-25 06:36:24.771][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:36:24.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:36:24.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:24.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:24.775][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:36:24.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:36:24.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:24.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:24.794][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-25 06:36:24.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-25 06:36:24.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:24.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:24.798][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-25 06:36:24.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-25 06:36:24.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:24.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:24.802][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-25 06:36:24.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-25 06:36:24.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:24.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:24.806][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:36:24.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:36:24.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:24.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:24.833][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:36:24.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:36:24.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:24.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:24.841][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:36:24.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:36:24.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:24.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:24.845][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:36:24.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:36:24.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:24.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:24.853][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-01-25 06:36:24.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:36:24.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:24.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:24.857][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-01-25 06:36:24.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:36:24.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:24.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:24.864][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-25 06:36:24.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-25 06:36:24.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:24.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:24.868][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-25 06:36:24.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-25 06:36:24.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:24.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:24.876][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:36:24.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:24.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:24.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:24.880][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:36:24.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:24.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:24.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:24.888][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-01-25 06:36:24.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:24.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:24.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:24.893][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2022-01-25 06:36:24.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:24.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:24.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:24.897][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:36:24.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:24.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:24.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:24.901][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:36:24.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:24.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:24.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:24.904][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-01-25 06:36:24.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:24.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:24.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:24.937][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:36:24.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:24.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:24.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:24.941][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:36:24.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:24.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:24.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:24.975][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:36:24.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:24.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:24.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:24.979][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:36:24.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:24.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:24.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:24.983][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:36:24.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:24.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:24.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:24.991][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:36:24.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:36:24.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:24.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:24.995][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:36:24.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:36:24.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:24.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:24.999][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:36:25.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:36:25.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.003][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:36:25.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:36:25.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:36:25.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:36:25.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:36:25.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:36:25.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:36:25.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:36:25.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.023][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:36:25.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:36:25.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:36:25.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:36:25.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:36:25.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:36:25.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-25 06:36:25.036][biodb$getFactory()$createEntryFromCo ...] Accession numbers: LMFA00000001.
biodb.TRACE[2022-01-25 06:36:25.044][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-25 06:36:25.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-25 06:36:25.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.048][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-25 06:36:25.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-25 06:36:25.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.052][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-25 06:36:25.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-25 06:36:25.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.056][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-25 06:36:25.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-25 06:36:25.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:36:25.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:36:25.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.104][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:36:25.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:36:25.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.112][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:36:25.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:36:25.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.116][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:36:25.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:36:25.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.120][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:36:25.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:36:25.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.125][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:36:25.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:36:25.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:36:25.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:36:25.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:36:25.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:36:25.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.137][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:36:25.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:36:25.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.148][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:36:25.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:36:25.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.152][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:36:25.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:36:25.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:36:25.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:36:25.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:36:25.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:36:25.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.170][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:36:25.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:36:25.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.174][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:36:25.175][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:36:25.175][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.176][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.177][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:36:25.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:36:25.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.186][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:36:25.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:25.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.190][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:36:25.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:25.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.194][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:36:25.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:25.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.197][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:36:25.198][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:25.199][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.200][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.201][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:36:25.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:25.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.209][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:36:25.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:36:25.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.213][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:36:25.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:36:25.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.216][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:36:25.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:36:25.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.220][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:36:25.221][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:36:25.222][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.223][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.224][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:36:25.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:36:25.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.232][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-25 06:36:25.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-25 06:36:25.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.236][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-25 06:36:25.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-25 06:36:25.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.240][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-25 06:36:25.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-25 06:36:25.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.243][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-25 06:36:25.244][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-25 06:36:25.245][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.246][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.247][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-25 06:36:25.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-25 06:36:25.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.255][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:36:25.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:36:25.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.259][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:36:25.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:36:25.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.263][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:36:25.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:36:25.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.271][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:36:25.273][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:36:25.274][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.275][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.276][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:36:25.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:36:25.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.287][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:36:25.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:36:25.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.292][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:36:25.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:36:25.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.296][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:36:25.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:36:25.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.300][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:36:25.301][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:36:25.302][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.303][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.304][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:36:25.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:36:25.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.314][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:36:25.315][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:36:25.316][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.317][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.321][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:36:25.322][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:36:25.323][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.324][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.328][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-25 06:36:25.329][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-25 06:36:25.330][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.331][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.334][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:36:25.335][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:36:25.336][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.337][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.341][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:36:25.342][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:25.343][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.343][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.347][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:36:25.348][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:36:25.349][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.350][ef$get] fields variable is a list.
biodb.INFO [2022-01-25 06:36:25.354][biodb::testThat] 
biodb.INFO [2022-01-25 06:36:25.355][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2022-01-25 06:36:25.356][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-25 06:36:25.357][biodb::testThat] 
biodb.DEBUG[2022-01-25 06:36:25.385][private$loadEntries] Creating entries from ids [1]: "LMFA00000001".
biodb.DEBUG[2022-01-25 06:36:25.394][conn$getEntryContent] Get LIPID MAPS Structure entry content(s) for 1 id(s)...
biodb.TRACE[2022-01-25 06:36:25.397][cch$loadFileContent] Trying to load 1 files from cache: [1]: "LMFA00000001".
biodb.TRACE[2022-01-25 06:36:25.399][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-25 06:36:25.400][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA00000001.tsv".
biodb.DEBUG[2022-01-25 06:36:25.401][conn$getEntryContent] 1 LIPID MAPS Structure entry content(s) loaded from cache.
biodb.DEBUG[2022-01-25 06:36:25.439][self$createEntryFromContent] Creating LIPID MAPS Structure entries from 1 content(s).
biodb.DEBUG[2022-01-25 06:36:25.440][self$createEntryFromContent] Parsing 1 LIPID MAPS Structure entries.
biodb.DEBUG[2022-01-25 06:36:25.442][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-25 06:36:25.443][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:36:25.444][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:36:25.445][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:25.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:25.447][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:25.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-25 06:36:25.452][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:36:25.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:36:25.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.456][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:36:25.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:36:25.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.464][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-25 06:36:25.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-25 06:36:25.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.468][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-25 06:36:25.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-25 06:36:25.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.472][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-25 06:36:25.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-25 06:36:25.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.476][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:36:25.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:36:25.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.480][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:36:25.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:36:25.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.489][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:36:25.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:36:25.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.493][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:36:25.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:36:25.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.501][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-01-25 06:36:25.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:36:25.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.505][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-01-25 06:36:25.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:36:25.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.513][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-25 06:36:25.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-25 06:36:25.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.516][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-25 06:36:25.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-25 06:36:25.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.524][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:36:25.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:25.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.527][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:36:25.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:25.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.535][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-01-25 06:36:25.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:25.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.538][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2022-01-25 06:36:25.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:25.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.542][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:36:25.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:25.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.546][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:36:25.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:25.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.549][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-01-25 06:36:25.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:25.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.557][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:36:25.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:25.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.560][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:36:25.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:25.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.564][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:36:25.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:25.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.568][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:36:25.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:25.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.571][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:36:25.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:25.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.579][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:36:25.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:36:25.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.582][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:36:25.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:36:25.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:36:25.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:36:25.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.590][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:36:25.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:36:25.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:36:25.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:36:25.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:36:25.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:36:25.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:36:25.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:36:25.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:36:25.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:36:25.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.618][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:36:25.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:36:25.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.622][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:36:25.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:36:25.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-25 06:36:25.626][self$createEntryFromContent] Accession numbers: LMFA00000001.
biodb.TRACE[2022-01-25 06:36:25.627][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2022-01-25 06:36:25.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2022-01-25 06:36:25.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.631][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2022-01-25 06:36:25.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2022-01-25 06:36:25.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.635][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2022-01-25 06:36:25.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2022-01-25 06:36:25.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-01-25 06:36:25.642][biodb::testThat] 
biodb.INFO [2022-01-25 06:36:25.643][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2022-01-25 06:36:25.644][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-25 06:36:25.645][biodb::testThat] 
biodb.TRACE[2022-01-25 06:36:25.648][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:36:25.649][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:25.650][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.651][ef$get] fields variable is a list.
biodb.DEBUG[2022-01-25 06:36:25.652][function(conn, opt)] Testing searchForEntries() with entry "LMFA00000001" and field "name".
biodb.TRACE[2022-01-25 06:36:25.673][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:36:25.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:25.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.678][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:36:25.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:25.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:25.681][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:36:25.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:25.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:25.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-25 06:36:25.687][function(conn, opt)] With value "2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride".
biodb.DEBUG[2022-01-25 06:36:25.715][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[2022-01-25 06:36:25.732][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:36:25.733][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:36:25.734][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl%20anhydride".
biodb.TRACE[2022-01-25 06:36:27.475][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl%20anhydride).
biodb.DEBUG[2022-01-25 06:36:28.126][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-01-25 06:36:28.135][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.content"
biodb.TRACE[2022-01-25 06:36:28.161][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.request"
biodb.DEBUG[2022-01-25 06:36:28.167][function(conn, opt)] With found IDs [1]: "LMFA00000001".
biodb.TRACE[2022-01-25 06:36:28.177][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:36:28.178][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:36:28.179][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:28.180][ef$get] fields variable is a list.
biodb.INFO [2022-01-25 06:36:28.183][biodb::testThat] 
biodb.INFO [2022-01-25 06:36:28.184][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2022-01-25 06:36:28.185][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-25 06:36:28.186][biodb::testThat] 
biodb.TRACE[2022-01-25 06:36:28.200][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:36:28.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:28.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:28.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:28.204][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:36:28.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:28.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:28.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:28.208][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:36:28.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:28.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:28.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-25 06:36:28.318][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride".
biodb.DEBUG[2022-01-25 06:36:28.321][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-25 06:36:28.336][cch$loadFileContent] Trying to load 1 files from cache: [1]: "e8702bf6dc5a5afd048f747914fd7a6a".
biodb.TRACE[2022-01-25 06:36:28.338][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-25 06:36:28.339][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.content".
biodb.INFO [2022-01-25 06:36:28.349][biodb::testThat] 
biodb.INFO [2022-01-25 06:36:28.350][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2022-01-25 06:36:28.351][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-25 06:36:28.352][biodb::testThat] 
biodb.TRACE[2022-01-25 06:36:28.383][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-25 06:36:28.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-25 06:36:28.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:28.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:28.387][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-25 06:36:28.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-25 06:36:28.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:28.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:28.391][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-25 06:36:28.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-25 06:36:28.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:28.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:28.395][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-25 06:36:28.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-25 06:36:28.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:28.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:28.442][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-25 06:36:28.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-25 06:36:28.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:28.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:28.446][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-25 06:36:28.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-25 06:36:28.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:28.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:28.450][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-25 06:36:28.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-25 06:36:28.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:28.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:28.454][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-25 06:36:28.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-25 06:36:28.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:28.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-01-25 06:36:28.460][biodb::testThat] 
biodb.INFO [2022-01-25 06:36:28.461][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2022-01-25 06:36:28.462][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-25 06:36:28.463][biodb::testThat] 
biodb.INFO [2022-01-25 06:36:28.468][biodb::testThat] 
biodb.INFO [2022-01-25 06:36:28.469][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2022-01-25 06:36:28.470][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-25 06:36:28.471][biodb::testThat] 
biodb.INFO [2022-01-25 06:36:28.475][biodb::testThat] 
biodb.INFO [2022-01-25 06:36:28.476][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2022-01-25 06:36:28.477][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-25 06:36:28.478][biodb::testThat] 
biodb.DEBUG[2022-01-25 06:36:28.482][function(conn, opt)] Trying to download "https://www.lipidmaps.org/data?LMID=LMFA00000001".
biodb.DEBUG[2022-01-25 06:36:29.212][getUrlContent] Use RCurl for downloading content of URL https://www.lipidmaps.org/data?LMID=LMFA00000001.
biodb.INFO [2022-01-25 06:36:29.901][biodb::testThat] 
biodb.INFO [2022-01-25 06:36:29.902][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2022-01-25 06:36:29.904][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-25 06:36:29.905][biodb::testThat] 
biodb.INFO [2022-01-25 06:36:29.910][biodb::testThat] 
biodb.INFO [2022-01-25 06:36:29.911][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2022-01-25 06:36:29.913][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-25 06:36:29.914][biodb::testThat] 
biodb.TRACE[2022-01-25 06:36:29.924][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:36:29.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:29.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:29.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:29.929][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:36:29.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:29.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:29.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:29.934][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:36:29.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:36:29.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:29.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-25 06:36:30.043][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride".
biodb.DEBUG[2022-01-25 06:36:30.047][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-25 06:36:30.049][cch$loadFileContent] Trying to load 1 files from cache: [1]: "e8702bf6dc5a5afd048f747914fd7a6a".
biodb.TRACE[2022-01-25 06:36:30.051][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-25 06:36:30.052][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.content".
biodb.DEBUG[2022-01-25 06:36:30.066][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride".
biodb.DEBUG[2022-01-25 06:36:30.069][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-25 06:36:30.070][cch$loadFileContent] Trying to load 1 files from cache: [1]: "e8702bf6dc5a5afd048f747914fd7a6a".
biodb.TRACE[2022-01-25 06:36:30.072][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-25 06:36:30.073][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.content".
biodb.TRACE[2022-01-25 06:36:30.083][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-25 06:36:30.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-25 06:36:30.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:30.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:30.089][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-25 06:36:30.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-25 06:36:30.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:30.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:30.096][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:36:30.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:36:30.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:30.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:30.100][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:36:30.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:36:30.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:30.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:30.103][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:36:30.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:36:30.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:30.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:30.107][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:36:30.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:36:30.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:30.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:30.111][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:36:30.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:36:30.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:30.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-25 06:36:30.138][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=1e-06".
biodb.DEBUG[2022-01-25 06:36:30.157][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:36:30.158][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:36:30.171][private$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[2022-01-25 06:36:34.574][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[2022-01-25 06:36:44.829][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.INFO [2022-01-25 06:36:44.835][self$getFolderPath] Create cache folder "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b" for "lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b".
biodb.TRACE[2022-01-25 06:36:44.839][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/304383a7dc8c451be84009e31d831359.content"
biodb.TRACE[2022-01-25 06:36:44.863][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/304383a7dc8c451be84009e31d831359.request"
biodb.DEBUG[2022-01-25 06:36:45.262][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride&ExactMass=626.491025&ExactMassOffSet=1e-06".
biodb.DEBUG[2022-01-25 06:36:45.265][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:36:45.266][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:36:45.268][private$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[2022-01-25 06:36:45.893][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[2022-01-25 06:36:46.518][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-01-25 06:36:46.524][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/7f71825f1888a7b29e4b8407502d21e3.content"
biodb.TRACE[2022-01-25 06:36:46.534][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/7f71825f1888a7b29e4b8407502d21e3.request"
biodb.DEBUG[2022-01-25 06:36:46.569][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[2022-01-25 06:36:46.573][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:36:46.574][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:36:46.576][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl%20anhydride&ExactMass=626.491026&ExactMassOffSet=2e-06".
biodb.TRACE[2022-01-25 06:36:47.190][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl%20anhydride&ExactMass=626.491026&ExactMassOffSet=2e-06).
biodb.DEBUG[2022-01-25 06:36:47.858][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-01-25 06:36:47.863][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/fd41c675dd237f33cdaafcbb15058c54.content"
biodb.TRACE[2022-01-25 06:36:47.870][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/fd41c675dd237f33cdaafcbb15058c54.request"
biodb.TRACE[2022-01-25 06:36:47.882][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2022-01-25 06:36:47.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2022-01-25 06:36:47.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:47.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-01-25 06:36:47.889][biodb::testThat] 
biodb.INFO [2022-01-25 06:36:47.890][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2022-01-25 06:36:47.891][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-25 06:36:47.892][biodb::testThat] 
biodb.TRACE[2022-01-25 06:36:47.895][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-25 06:36:47.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-25 06:36:47.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:47.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:47.898][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-25 06:36:47.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-25 06:36:47.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:47.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:47.902][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:36:47.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:36:47.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:47.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:47.906][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:36:47.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:36:47.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:47.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:47.909][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:36:47.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:36:47.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:47.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:36:47.913][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:36:47.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:36:47.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:36:47.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-25 06:36:47.919][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-25 06:36:47.920][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:36:47.920][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:36:47.922][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:36:47.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:36:47.924][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:36:47.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:36:47.990][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.01".
biodb.DEBUG[2022-01-25 06:36:47.993][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:36:47.994][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:36:47.996][private$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[2022-01-25 06:36:52.408][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[2022-01-25 06:37:02.624][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-01-25 06:37:02.634][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f4acf835cb23946f08f684530aa686a3.content"
biodb.TRACE[2022-01-25 06:37:02.657][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f4acf835cb23946f08f684530aa686a3.request"
biodb.DEBUG[2022-01-25 06:37:02.958][private$loadEntries] Creating entries from ids [2]: "LMFA00000002, LMFA00000003".
biodb.DEBUG[2022-01-25 06:37:02.997][conn$getEntryContent] Get LIPID MAPS Structure entry content(s) for 2 id(s)...
biodb.TRACE[2022-01-25 06:37:02.999][cch$loadFileContent] Trying to load 2 files from cache: [2]: "LMFA00000002, LMFA00000003".
biodb.TRACE[2022-01-25 06:37:03.000][cch$loadFileContent] file.exist = [2]: "FALSE, FALSE".
biodb.TRACE[2022-01-25 06:37:03.001][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-25 06:37:03.002][conn$getEntryContent] 0 LIPID MAPS Structure entry content(s) loaded from cache.
biodb.DEBUG[2022-01-25 06:37:03.003][conn$getEntryContent] 2 entry content(s) need to be fetched from LIPID MAPS Structure database "https://www.lipidmaps.org/data/".
biodb.DEBUG[2022-01-25 06:37:03.004][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-25 06:37:03.005][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-25 06:37:03.018][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-25 06:37:03.019][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:37:03.020][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:37:03.021][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:37:03.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:37:03.023][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:37:03.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:37:03.025][scheduler$sendRequest] Getting content of get URL request "https://www.lipidmaps.org/databases/lmsd/LMFA00000002?format=tsv".
biodb.DEBUG[2022-01-25 06:37:03.027][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:37:03.028][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:37:03.029][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/LMFA00000002?format=tsv".
biodb.TRACE[2022-01-25 06:37:03.661][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/databases/lmsd/LMFA00000002?format=tsv).
biodb.DEBUG[2022-01-25 06:37:04.279][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-01-25 06:37:04.288][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/a989db4a318873c598872a885a94e78c.content"
biodb.TRACE[2022-01-25 06:37:04.300][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/a989db4a318873c598872a885a94e78c.request"
biodb.DEBUG[2022-01-25 06:37:04.305][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-25 06:37:04.306][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:37:04.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:37:04.308][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:37:04.309][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:37:04.309][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:37:04.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:37:04.311][scheduler$sendRequest] Getting content of get URL request "https://www.lipidmaps.org/databases/lmsd/LMFA00000003?format=tsv".
biodb.DEBUG[2022-01-25 06:37:04.314][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:37:04.315][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:37:04.316][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/LMFA00000003?format=tsv".
biodb.TRACE[2022-01-25 06:37:04.950][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/databases/lmsd/LMFA00000003?format=tsv).
biodb.DEBUG[2022-01-25 06:37:05.602][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-01-25 06:37:05.637][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f88961343869f5da5bc09cbcc0e6185e.content"
biodb.TRACE[2022-01-25 06:37:05.657][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f88961343869f5da5bc09cbcc0e6185e.request"
biodb.TRACE[2022-01-25 06:37:05.676][private$doSaveContentToFile] Saving to cache [2]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA00000002.tsv, /home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA00000003.tsv"
biodb.DEBUG[2022-01-25 06:37:05.683][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-25 06:37:05.698][self$createEntryFromContent] Creating LIPID MAPS Structure entries from 2 content(s).
biodb.DEBUG[2022-01-25 06:37:05.701][self$createEntryFromContent] Parsing 2 LIPID MAPS Structure entries.
biodb.DEBUG[2022-01-25 06:37:05.705][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-25 06:37:05.706][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:37:05.707][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:37:05.709][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:37:05.709][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:37:05.710][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:37:05.711][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.TRACE[2022-01-25 06:37:05.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:05.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:05.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.718][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:05.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:05.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.726][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-25 06:37:05.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-25 06:37:05.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.751][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-25 06:37:05.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-25 06:37:05.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.759][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-25 06:37:05.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-25 06:37:05.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.763][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-25 06:37:05.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-25 06:37:05.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.767][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:37:05.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:37:05.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.771][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:37:05.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:37:05.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.778][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:37:05.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:37:05.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.782][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:37:05.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:37:05.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.801][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-01-25 06:37:05.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:37:05.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.804][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-01-25 06:37:05.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:37:05.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.811][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-25 06:37:05.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-25 06:37:05.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.815][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-25 06:37:05.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-25 06:37:05.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.822][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:37:05.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:37:05.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.825][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:37:05.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:37:05.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.832][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-01-25 06:37:05.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:37:05.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.835][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2022-01-25 06:37:05.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:37:05.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.839][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:37:05.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:37:05.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.842][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:37:05.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:37:05.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.846][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-01-25 06:37:05.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:37:05.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.853][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:05.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:05.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.856][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:05.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:05.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:05.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:05.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.863][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:05.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:05.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.867][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:05.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:05.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:05.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:05.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.874][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:05.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:05.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-25 06:37:05.881][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-25 06:37:05.882][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:37:05.883][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:37:05.884][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:37:05.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:37:05.886][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:37:05.887][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-25 06:37:05.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:05.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:05.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.894][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:05.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:05.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.902][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-25 06:37:05.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-25 06:37:05.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.906][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-25 06:37:05.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-25 06:37:05.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.910][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-25 06:37:05.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-25 06:37:05.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.914][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:37:05.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:37:05.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.917][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:37:05.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:37:05.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.925][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:37:05.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:37:05.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.929][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:37:05.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:37:05.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.937][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-01-25 06:37:05.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:37:05.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.952][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-01-25 06:37:05.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:37:05.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.959][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-25 06:37:05.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-25 06:37:05.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.963][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-25 06:37:05.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-25 06:37:05.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.970][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:37:05.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:37:05.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.974][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:37:05.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:37:05.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.981][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-01-25 06:37:05.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:37:05.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.985][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2022-01-25 06:37:05.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:37:05.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.988][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:37:05.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:37:05.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.992][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:37:05.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:37:05.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:05.995][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-01-25 06:37:05.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:37:05.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:05.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.003][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.006][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:06.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:06.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.013][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:06.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:06.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:06.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:06.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.024][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:06.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:06.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:06.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:06.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:06.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:06.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.039][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:06.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:06.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.042][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:06.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:06.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:06.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:06.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:06.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:06.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-25 06:37:06.053][self$createEntryFromContent] Accession numbers: LMFA00000002, LMFA00000003.
biodb.DEBUG[2022-01-25 06:37:06.062][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2022-01-25 06:37:06.064][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-25 06:37:06.065][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:37:06.066][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:37:06.067][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:37:06.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:37:06.069][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:37:06.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-25 06:37:06.071][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.074][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.078][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:37:06.079][private$selectFields] 
biodb.TRACE[2022-01-25 06:37:06.080][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-25 06:37:06.080][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-25 06:37:06.081][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:37:06.082][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.083][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.084][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.085][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.086][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.097][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.098][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.099][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.100][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:37:06.101][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:37:06.101][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.102][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.103][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.104][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.105][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2022-01-25 06:37:06.106][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.109][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.113][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.125][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2022-01-25 06:37:06.126][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-25 06:37:06.127][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:37:06.127][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:37:06.129][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:37:06.130][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:37:06.131][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:37:06.131][FUN] Functions in observer BiodbConfig: [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[2022-01-25 06:37:06.133][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.136][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.140][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:37:06.141][private$selectFields] 
biodb.TRACE[2022-01-25 06:37:06.142][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-25 06:37:06.143][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-25 06:37:06.144][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:37:06.145][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.146][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.146][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.147][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.148][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.149][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.150][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.151][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.152][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:37:06.153][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:37:06.154][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.155][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.155][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.156][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.157][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2022-01-25 06:37:06.158][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.162][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.166][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.170][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2022-01-25 06:37:06.171][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-25 06:37:06.172][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:37:06.172][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:37:06.174][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:37:06.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:37:06.175][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:37:06.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-25 06:37:06.177][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.181][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.184][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:37:06.185][private$selectFields] 
biodb.TRACE[2022-01-25 06:37:06.186][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-25 06:37:06.187][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-25 06:37:06.187][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:37:06.188][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.189][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.190][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.191][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.192][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.193][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.195][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.196][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.197][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:37:06.199][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:37:06.200][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.201][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.202][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.203][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.205][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2022-01-25 06:37:06.206][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.211][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.217][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:06.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.222][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2022-01-25 06:37:06.224][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2022-01-25 06:37:06.225][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2022-01-25 06:37:06.235][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2022-01-25 06:37:06.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2022-01-25 06:37:06.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-01-25 06:37:06.242][biodb::testThat] 
biodb.INFO [2022-01-25 06:37:06.243][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2022-01-25 06:37:06.244][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-25 06:37:06.246][biodb::testThat] 
biodb.TRACE[2022-01-25 06:37:06.249][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-25 06:37:06.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-25 06:37:06.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.255][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-25 06:37:06.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-25 06:37:06.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.274][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:37:06.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:37:06.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.279][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:37:06.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:37:06.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.284][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:37:06.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:37:06.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:06.289][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:37:06.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:37:06.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:06.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-25 06:37:06.369][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-25 06:37:06.370][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:37:06.371][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:37:06.374][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:37:06.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:37:06.376][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:37:06.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:37:06.481][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.009397365375".
biodb.DEBUG[2022-01-25 06:37:06.483][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:37:06.485][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:37:06.486][private$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[2022-01-25 06:37:10.857][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[2022-01-25 06:37:20.904][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-01-25 06:37:20.918][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/5652f5994fce967a05a065a71bac3ed6.content"
biodb.TRACE[2022-01-25 06:37:20.949][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/5652f5994fce967a05a065a71bac3ed6.request"
biodb.DEBUG[2022-01-25 06:37:21.315][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2022-01-25 06:37:21.342][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-25 06:37:21.343][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:37:21.344][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:37:21.346][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:37:21.347][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:37:21.348][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:37:21.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-25 06:37:21.362][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:21.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:21.366][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:21.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:21.410][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:37:21.411][private$selectFields] 
biodb.TRACE[2022-01-25 06:37:21.412][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-25 06:37:21.413][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-25 06:37:21.414][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:37:21.415][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.415][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.416][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:21.417][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:21.418][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.419][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.420][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:21.421][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:21.422][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:37:21.431][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:37:21.432][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.433][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.434][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:21.434][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:21.435][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2022-01-25 06:37:21.436][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:21.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:21.440][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:21.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:21.443][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:21.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:21.447][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2022-01-25 06:37:21.448][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-25 06:37:21.449][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:37:21.450][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:37:21.451][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:37:21.452][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:37:21.453][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:37:21.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-25 06:37:21.455][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:21.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:21.459][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:21.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:21.463][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:37:21.464][private$selectFields] 
biodb.TRACE[2022-01-25 06:37:21.465][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-25 06:37:21.465][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-25 06:37:21.466][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:37:21.467][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.468][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.469][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:21.470][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:21.471][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.472][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.473][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:21.474][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:21.474][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:37:21.475][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:37:21.476][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.477][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.478][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:21.479][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:21.480][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2022-01-25 06:37:21.481][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:21.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:21.484][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:21.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:21.489][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:21.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:21.493][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2022-01-25 06:37:21.494][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-25 06:37:21.495][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:37:21.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:37:21.497][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:37:21.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:37:21.499][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:37:21.499][FUN] Functions in observer BiodbConfig: [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[2022-01-25 06:37:21.500][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:21.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:21.504][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:21.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:21.508][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:37:21.509][private$selectFields] 
biodb.TRACE[2022-01-25 06:37:21.509][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-25 06:37:21.510][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-25 06:37:21.511][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:37:21.512][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.513][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.515][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:21.516][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:21.516][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.517][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.518][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:21.519][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:21.520][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:37:21.521][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:37:21.522][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.523][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.524][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:21.525][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:21.526][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2022-01-25 06:37:21.527][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:21.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:21.530][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:21.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:21.534][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:21.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:21.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:21.538][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2022-01-25 06:37:21.539][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2022-01-25 06:37:21.540][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2022-01-25 06:37:21.547][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2022-01-25 06:37:21.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2022-01-25 06:37:21.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:21.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-01-25 06:37:21.566][biodb::testThat] 
biodb.INFO [2022-01-25 06:37:21.567][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2022-01-25 06:37:21.568][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-25 06:37:21.569][biodb::testThat] 
biodb.TRACE[2022-01-25 06:37:21.572][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-25 06:37:21.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-25 06:37:21.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:21.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:21.575][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-25 06:37:21.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-25 06:37:21.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:21.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:21.579][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:37:21.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:37:21.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:21.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:21.583][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:37:21.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:37:21.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:21.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:21.586][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:37:21.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:37:21.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:21.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:21.590][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:37:21.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:37:21.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:21.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-25 06:37:21.596][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-25 06:37:21.597][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:37:21.598][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:37:21.599][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:37:21.600][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:37:21.601][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:37:21.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:37:21.663][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[2022-01-25 06:37:21.666][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-25 06:37:21.667][cch$loadFileContent] Trying to load 1 files from cache: [1]: "f4acf835cb23946f08f684530aa686a3".
biodb.TRACE[2022-01-25 06:37:21.668][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-25 06:37:21.716][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f4acf835cb23946f08f684530aa686a3.content".
biodb.DEBUG[2022-01-25 06:37:22.335][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2022-01-25 06:37:22.337][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-25 06:37:22.338][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:37:22.339][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:37:22.340][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:37:22.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:37:22.342][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:37:22.343][FUN] Functions in observer BiodbConfig: [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[2022-01-25 06:37:22.344][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:22.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:22.348][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:22.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:22.351][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:37:22.352][private$selectFields] 
biodb.TRACE[2022-01-25 06:37:22.353][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-25 06:37:22.354][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-25 06:37:22.372][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:37:22.373][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.374][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.375][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:22.376][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:22.377][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.378][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.379][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:22.380][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:22.380][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:37:22.381][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:37:22.382][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.383][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.384][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:22.385][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:22.386][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2022-01-25 06:37:22.387][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:22.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:22.390][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:22.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:22.394][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:22.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:22.398][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2022-01-25 06:37:22.398][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-25 06:37:22.399][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:37:22.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:37:22.402][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:37:22.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:37:22.403][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:37:22.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-25 06:37:22.405][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:22.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:22.409][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:22.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:22.412][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:37:22.413][private$selectFields] 
biodb.TRACE[2022-01-25 06:37:22.414][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-25 06:37:22.415][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-25 06:37:22.416][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:37:22.416][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.417][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.418][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:22.419][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:22.420][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.421][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.422][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:22.423][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:22.424][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:37:22.424][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:37:22.425][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.426][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.427][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:22.428][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:22.429][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2022-01-25 06:37:22.430][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:22.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:22.433][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:22.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:22.437][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:22.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:22.441][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2022-01-25 06:37:22.441][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-25 06:37:22.442][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:37:22.443][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:37:22.445][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:37:22.445][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:37:22.446][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:37:22.447][FUN] Functions in observer BiodbConfig: [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[2022-01-25 06:37:22.448][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:22.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:22.452][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:22.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:22.455][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:37:22.456][private$selectFields] 
biodb.TRACE[2022-01-25 06:37:22.457][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-25 06:37:22.458][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-25 06:37:22.459][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:37:22.460][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.461][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.461][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:22.462][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:22.463][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.464][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.465][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:22.466][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:22.467][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:37:22.468][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:37:22.468][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.469][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.470][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:22.471][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:22.472][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2022-01-25 06:37:22.473][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:22.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:22.477][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:22.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:22.480][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:22.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:22.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:22.484][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2022-01-25 06:37:22.485][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2022-01-25 06:37:22.486][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2022-01-25 06:37:22.499][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2022-01-25 06:37:22.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2022-01-25 06:37:22.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:22.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-01-25 06:37:22.504][biodb::testThat] 
biodb.INFO [2022-01-25 06:37:22.505][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2022-01-25 06:37:22.506][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-25 06:37:22.507][biodb::testThat] 
biodb.DEBUG[2022-01-25 06:37:22.508][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2022-01-25 06:37:22.551][conn$getEntryContent] Get LIPID MAPS Structure entry content(s) for 1 id(s)...
biodb.TRACE[2022-01-25 06:37:22.553][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2022-01-25 06:37:22.554][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-01-25 06:37:22.555][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-25 06:37:22.556][conn$getEntryContent] 0 LIPID MAPS Structure entry content(s) loaded from cache.
biodb.DEBUG[2022-01-25 06:37:22.557][conn$getEntryContent] 1 entry content(s) need to be fetched from LIPID MAPS Structure database "https://www.lipidmaps.org/data/".
biodb.DEBUG[2022-01-25 06:37:22.558][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-25 06:37:22.559][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-25 06:37:22.572][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-25 06:37:22.572][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:37:22.573][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:37:22.575][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:37:22.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:37:22.576][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:37:22.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:37:22.578][scheduler$sendRequest] Getting content of get URL request "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv".
biodb.DEBUG[2022-01-25 06:37:22.581][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:37:22.582][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:37:22.583][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv".
biodb.TRACE[2022-01-25 06:37:23.191][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv does not exist.
biodb.TRACE[2022-01-25 06:37:23.193][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-25 06:37:23.194][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[2022-01-25 06:37:23.196][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv).
biodb.INFO [2022-01-25 06:37:23.919][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-01-25 06:37:23.920][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:37:23.921][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:37:23.922][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv".
biodb.TRACE[2022-01-25 06:37:24.534][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv does not exist.
biodb.TRACE[2022-01-25 06:37:24.536][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-25 06:37:24.539][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[2022-01-25 06:37:24.541][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv).
biodb.INFO [2022-01-25 06:37:25.265][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-01-25 06:37:25.266][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:37:25.267][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:37:25.268][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv".
biodb.TRACE[2022-01-25 06:37:25.843][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv does not exist.
biodb.TRACE[2022-01-25 06:37:25.844][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-25 06:37:25.845][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[2022-01-25 06:37:25.846][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv).
biodb.INFO [2022-01-25 06:37:26.594][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-01-25 06:37:26.596][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:37:26.597][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:37:26.599][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv".
biodb.TRACE[2022-01-25 06:37:27.209][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv does not exist.
biodb.TRACE[2022-01-25 06:37:27.210][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-25 06:37:27.211][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[2022-01-25 06:37:27.213][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv).
biodb.INFO [2022-01-25 06:37:27.935][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-01-25 06:37:27.936][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:37:27.937][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:37:27.939][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv".
biodb.TRACE[2022-01-25 06:37:28.543][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv does not exist.
biodb.TRACE[2022-01-25 06:37:28.544][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-25 06:37:28.546][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[2022-01-25 06:37:28.547][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv).
biodb.INFO [2022-01-25 06:37:29.320][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-01-25 06:37:29.322][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:37:29.323][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:37:29.325][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv".
biodb.TRACE[2022-01-25 06:37:29.933][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv does not exist.
biodb.TRACE[2022-01-25 06:37:29.935][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-25 06:37:29.936][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[2022-01-25 06:37:29.938][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv).
biodb.INFO [2022-01-25 06:37:30.674][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-01-25 06:37:30.675][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:37:30.677][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:37:30.679][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv".
biodb.TRACE[2022-01-25 06:37:31.289][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv does not exist.
biodb.TRACE[2022-01-25 06:37:31.290][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-25 06:37:31.292][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[2022-01-25 06:37:31.293][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv).
biodb.INFO [2022-01-25 06:37:32.020][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-01-25 06:37:32.022][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:37:32.023][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:37:32.025][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv".
biodb.TRACE[2022-01-25 06:37:32.628][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv does not exist.
biodb.TRACE[2022-01-25 06:37:32.630][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-25 06:37:32.631][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[2022-01-25 06:37:32.633][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv).
biodb.INFO [2022-01-25 06:37:33.358][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-01-25 06:37:33.359][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:37:33.361][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:37:33.363][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv".
biodb.TRACE[2022-01-25 06:37:33.972][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv does not exist.
biodb.TRACE[2022-01-25 06:37:33.974][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-25 06:37:33.975][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[2022-01-25 06:37:33.977][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv).
biodb.INFO [2022-01-25 06:37:34.802][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-01-25 06:37:34.803][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:37:34.804][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:37:34.806][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv".
biodb.TRACE[2022-01-25 06:37:35.437][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv does not exist.
biodb.TRACE[2022-01-25 06:37:35.440][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-25 06:37:35.442][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[2022-01-25 06:37:35.444][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv).
biodb.INFO [2022-01-25 06:37:36.170][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv". Retrying connection to server...
biodb.TRACE[2022-01-25 06:37:36.183][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/WRONGA.tsv"
biodb.DEBUG[2022-01-25 06:37:36.189][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-25 06:37:36.202][self$createEntryFromContent] Creating LIPID MAPS Structure entries from 1 content(s).
biodb.DEBUG[2022-01-25 06:37:36.203][self$createEntryFromContent] Parsing 1 LIPID MAPS Structure entries.
biodb.DEBUG[2022-01-25 06:37:36.206][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-25 06:37:36.207][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:37:36.208][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:37:36.210][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:37:36.211][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:37:36.212][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:37:36.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-25 06:37:36.216][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:36.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:36.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:36.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:36.221][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:36.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:36.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:36.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:36.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:36.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:36.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:36.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:36.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:36.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:36.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:36.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:36.236][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:36.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:36.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:36.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:36.241][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:36.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:36.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:36.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:36.245][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:36.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:36.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:36.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:36.251][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:36.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:36.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:36.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-25 06:37:36.256][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2022-01-25 06:37:36.257][self$createEntryFromContent] Found %d entry/ies without an accession number. Set it/them to NULL.1
biodb.INFO [2022-01-25 06:37:36.263][biodb::testThat] 
biodb.INFO [2022-01-25 06:37:36.264][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2022-01-25 06:37:36.265][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-25 06:37:36.267][biodb::testThat] 
biodb.DEBUG[2022-01-25 06:37:36.276][function(conn, opt)] IDS: [4]: "WRONGB, LMFA00000001, LMFA00000002, LMFA08040013"
biodb.DEBUG[2022-01-25 06:37:36.277][private$loadEntries] Creating entries from ids [2]: "WRONGB, LMFA08040013".
biodb.DEBUG[2022-01-25 06:37:36.279][conn$getEntryContent] Get LIPID MAPS Structure entry content(s) for 2 id(s)...
biodb.TRACE[2022-01-25 06:37:36.281][cch$loadFileContent] Trying to load 2 files from cache: [2]: "WRONGB, LMFA08040013".
biodb.TRACE[2022-01-25 06:37:36.282][cch$loadFileContent] file.exist = [2]: "FALSE, FALSE".
biodb.TRACE[2022-01-25 06:37:36.284][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-25 06:37:36.285][conn$getEntryContent] 0 LIPID MAPS Structure entry content(s) loaded from cache.
biodb.DEBUG[2022-01-25 06:37:36.287][conn$getEntryContent] 2 entry content(s) need to be fetched from LIPID MAPS Structure database "https://www.lipidmaps.org/data/".
biodb.DEBUG[2022-01-25 06:37:36.288][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-25 06:37:36.289][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-25 06:37:36.294][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-25 06:37:36.296][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:37:36.298][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:37:36.302][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:37:36.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:37:36.306][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:37:36.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:37:36.310][scheduler$sendRequest] Getting content of get URL request "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv".
biodb.DEBUG[2022-01-25 06:37:36.312][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:37:36.313][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:37:36.314][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv".
biodb.TRACE[2022-01-25 06:37:36.928][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv does not exist.
biodb.TRACE[2022-01-25 06:37:36.930][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-25 06:37:36.931][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-01-25 06:37:36.933][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv).
biodb.INFO [2022-01-25 06:37:37.762][private$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[2022-01-25 06:37:37.763][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:37:37.765][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:37:37.767][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv".
biodb.TRACE[2022-01-25 06:37:38.398][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv does not exist.
biodb.TRACE[2022-01-25 06:37:38.400][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-25 06:37:38.402][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-01-25 06:37:38.404][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv).
biodb.INFO [2022-01-25 06:37:39.130][private$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[2022-01-25 06:37:39.132][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:37:39.133][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:37:39.134][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv".
biodb.TRACE[2022-01-25 06:37:39.709][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv does not exist.
biodb.TRACE[2022-01-25 06:37:39.712][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-25 06:37:39.714][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-01-25 06:37:39.717][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv).
biodb.INFO [2022-01-25 06:37:40.442][private$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[2022-01-25 06:37:40.443][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:37:40.444][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:37:40.445][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv".
biodb.TRACE[2022-01-25 06:37:41.044][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv does not exist.
biodb.TRACE[2022-01-25 06:37:41.047][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-25 06:37:41.049][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-01-25 06:37:41.052][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv).
biodb.INFO [2022-01-25 06:37:41.817][private$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[2022-01-25 06:37:41.818][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:37:41.820][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:37:41.822][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv".
biodb.TRACE[2022-01-25 06:37:42.437][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv does not exist.
biodb.TRACE[2022-01-25 06:37:42.439][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-25 06:37:42.440][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-01-25 06:37:42.442][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv).
biodb.INFO [2022-01-25 06:37:43.168][private$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[2022-01-25 06:37:43.170][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:37:43.171][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:37:43.173][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv".
biodb.TRACE[2022-01-25 06:37:43.779][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv does not exist.
biodb.TRACE[2022-01-25 06:37:43.781][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-25 06:37:43.782][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-01-25 06:37:43.784][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv).
biodb.INFO [2022-01-25 06:37:44.511][private$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[2022-01-25 06:37:44.512][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:37:44.514][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:37:44.516][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv".
biodb.TRACE[2022-01-25 06:37:45.104][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv does not exist.
biodb.TRACE[2022-01-25 06:37:45.105][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-25 06:37:45.107][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-01-25 06:37:45.108][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv).
biodb.INFO [2022-01-25 06:37:45.856][private$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[2022-01-25 06:37:45.857][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:37:45.859][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:37:45.861][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv".
biodb.TRACE[2022-01-25 06:37:46.489][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv does not exist.
biodb.TRACE[2022-01-25 06:37:46.490][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-25 06:37:46.492][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-01-25 06:37:46.493][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv).
biodb.INFO [2022-01-25 06:37:47.318][private$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[2022-01-25 06:37:47.319][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:37:47.320][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:37:47.322][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv".
biodb.TRACE[2022-01-25 06:37:47.925][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv does not exist.
biodb.TRACE[2022-01-25 06:37:47.926][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-25 06:37:47.928][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-01-25 06:37:47.929][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv).
biodb.INFO [2022-01-25 06:37:48.706][private$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[2022-01-25 06:37:48.707][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:37:48.709][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:37:48.710][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv".
biodb.TRACE[2022-01-25 06:37:49.318][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv does not exist.
biodb.TRACE[2022-01-25 06:37:49.320][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-25 06:37:49.321][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-01-25 06:37:49.322][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv).
biodb.INFO [2022-01-25 06:37:50.034][private$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[2022-01-25 06:37:50.036][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-25 06:37:50.037][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:37:50.037][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:37:50.039][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:37:50.040][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:37:50.041][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:37:50.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:37:50.043][scheduler$sendRequest] Getting content of get URL request "https://www.lipidmaps.org/databases/lmsd/LMFA08040013?format=tsv".
biodb.DEBUG[2022-01-25 06:37:50.046][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:37:50.047][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:37:50.063][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/LMFA08040013?format=tsv".
biodb.TRACE[2022-01-25 06:37:50.671][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/databases/lmsd/LMFA08040013?format=tsv).
biodb.DEBUG[2022-01-25 06:37:51.303][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-01-25 06:37:51.316][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/0fdeb15a49cfc75bfed9dd3f524ffa41.content"
biodb.TRACE[2022-01-25 06:37:51.335][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/0fdeb15a49cfc75bfed9dd3f524ffa41.request"
biodb.TRACE[2022-01-25 06:37:51.353][private$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[2022-01-25 06:37:51.360][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-25 06:37:51.378][self$createEntryFromContent] Creating LIPID MAPS Structure entries from 2 content(s).
biodb.DEBUG[2022-01-25 06:37:51.381][self$createEntryFromContent] Parsing 2 LIPID MAPS Structure entries.
biodb.DEBUG[2022-01-25 06:37:51.383][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-25 06:37:51.384][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:37:51.384][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:37:51.386][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:37:51.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:37:51.388][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:37:51.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-25 06:37:51.390][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:51.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:51.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.394][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:51.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:51.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.397][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:51.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:51.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-25 06:37:51.401][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-25 06:37:51.402][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:37:51.402][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:37:51.404][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:37:51.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:37:51.406][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:37:51.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-25 06:37:51.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:51.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:51.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:51.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:51.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.436][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-25 06:37:51.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-25 06:37:51.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.439][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-25 06:37:51.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-25 06:37:51.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.446][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-25 06:37:51.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-25 06:37:51.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.450][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-25 06:37:51.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-25 06:37:51.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.457][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-25 06:37:51.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-25 06:37:51.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.460][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-25 06:37:51.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-25 06:37:51.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.467][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:37:51.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:37:51.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.471][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:37:51.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:37:51.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.477][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:37:51.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:37:51.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.481][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:37:51.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:37:51.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.488][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-01-25 06:37:51.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:37:51.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.491][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-01-25 06:37:51.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:37:51.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.498][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-25 06:37:51.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-25 06:37:51.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.502][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-25 06:37:51.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-25 06:37:51.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.509][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:37:51.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:37:51.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.512][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:37:51.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:37:51.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.519][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-01-25 06:37:51.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:37:51.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.523][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2022-01-25 06:37:51.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:37:51.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.526][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:37:51.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:37:51.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.530][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:37:51.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:37:51.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.533][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-01-25 06:37:51.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:37:51.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.540][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:37:51.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:37:51.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.544][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:37:51.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:37:51.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.547][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:37:51.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:37:51.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.551][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:37:51.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:37:51.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.554][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:37:51.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:37:51.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.561][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:51.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:51.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.565][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:51.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:51.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.569][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:51.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:51.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.584][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:51.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:37:51.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.588][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:51.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:51.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:51.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:51.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.595][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:51.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:51.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:51.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:51.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:51.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:51.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:51.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:51.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.612][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:51.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:51.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.616][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:51.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:51.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.619][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:51.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:51.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:51.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:51.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:37:51.626][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:37:51.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:37:51.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:37:51.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-25 06:37:51.630][self$createEntryFromContent] Accession numbers: NA, LMFA08040013.
biodb.DEBUG[2022-01-25 06:37:51.630][self$createEntryFromContent] Found %d entry/ies without an accession number. Set it/them to NULL.1
biodb.DEBUG[2022-01-25 06:37:51.631][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2022-01-25 06:37:51.639][biodb::testThat] 
biodb.INFO [2022-01-25 06:37:51.640][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2022-01-25 06:37:51.640][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-25 06:37:51.641][biodb::testThat] 
biodb.INFO [2022-01-25 06:37:51.657][biodb::testThat] 
biodb.INFO [2022-01-25 06:37:51.658][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2022-01-25 06:37:51.659][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-25 06:37:51.660][biodb::testThat] 
biodb.INFO [2022-01-25 06:37:51.665][biodb::testThat] 
biodb.INFO [2022-01-25 06:37:51.665][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2022-01-25 06:37:51.666][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-25 06:37:51.667][biodb::testThat] 
biodb.DEBUG[2022-01-25 06:37:51.688][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV".
biodb.DEBUG[2022-01-25 06:37:51.691][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:37:51.692][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:37:51.693][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV".
biodb.TRACE[2022-01-25 06:37:56.164][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV).
biodb.DEBUG[2022-01-25 06:38:06.160][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-01-25 06:38:06.169][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/13e15253cf65619ae7a700f5534f6030.content"
biodb.TRACE[2022-01-25 06:38:06.191][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/13e15253cf65619ae7a700f5534f6030.request"
biodb.INFO [2022-01-25 06:38:06.530][biodb::testThat] 
biodb.INFO [2022-01-25 06:38:06.532][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2022-01-25 06:38:06.532][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-25 06:38:06.533][biodb::testThat] 
biodb.ERROR[2022-01-25 06:38:06.544][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2022-01-25 06:38:06.553][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2022-01-25 06:38:06.558][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2022-01-25 06:38:06.560][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector lipidmaps.structure from the request scheduler
biodb.INFO [2022-01-25 06:38:06.561][self$deleteConn] Connector "lipidmaps.structure" deleted.
biodb.DEBUG[2022-01-25 06:38:06.561][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-01-25 06:38:06.562][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:06.563][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:06.564][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:06.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:06.565][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:06.566][FUN] Functions in observer BiodbConfig: [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 [2022-01-25 06:38:06.576][biodb::testContext] 
biodb.INFO [2022-01-25 06:38:06.577][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-25 06:38:06.577][biodb::testContext] Test context - Web services tests
biodb.INFO [2022-01-25 06:38:06.578][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-25 06:38:06.579][biodb::testContext] 
biodb.INFO [2022-01-25 06:38:06.585][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.2.2.
biodb.DEBUG[2022-01-25 06:38:06.586][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.14-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2022-01-25 06:38:06.590][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-25 06:38:06.591][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-01-25 06:38:06.592][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-01-25 06:38:06.593][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:06.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:06.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:06.595][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-01-25 06:38:06.596][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-01-25 06:38:06.597][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:06.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:06.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:06.600][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-01-25 06:38:06.601][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-01-25 06:38:06.602][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:06.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:06.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:06.604][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-01-25 06:38:06.605][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-01-25 06:38:06.606][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-01-25 06:38:06.607][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:06.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:06.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:06.609][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-01-25 06:38:06.610][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-01-25 06:38:06.611][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-01-25 06:38:06.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:06.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:06.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:06.614][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-01-25 06:38:06.615][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-01-25 06:38:06.616][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:06.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:06.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:06.619][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-01-25 06:38:06.620][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-01-25 06:38:06.621][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-01-25 06:38:06.621][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:06.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:06.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:06.624][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-01-25 06:38:06.625][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-01-25 06:38:06.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:06.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:06.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:06.628][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-01-25 06:38:06.629][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-01-25 06:38:06.630][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-01-25 06:38:06.631][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:06.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:06.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:06.633][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-01-25 06:38:06.634][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-01-25 06:38:06.662][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-01-25 06:38:06.663][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-01-25 06:38:06.664][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-01-25 06:38:06.665][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-01-25 06:38:06.666][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:06.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:06.667][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[2022-01-25 06:38:06.668][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-01-25 06:38:06.669][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-01-25 06:38:06.670][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:06.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:06.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:06.672][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-01-25 06:38:06.673][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-01-25 06:38:06.674][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:06.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:06.676][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:06.677][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-01-25 06:38:06.677][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-01-25 06:38:06.678][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:06.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:06.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:06.681][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-01-25 06:38:06.682][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-01-25 06:38:06.682][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:06.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:06.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:06.685][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-01-25 06:38:06.686][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-01-25 06:38:06.686][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:06.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:06.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:06.689][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-01-25 06:38:06.690][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-01-25 06:38:06.695][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2022-01-25 06:38:06.696][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:06.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:06.697][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[2022-01-25 06:38:06.698][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-01-25 06:38:06.699][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-01-25 06:38:06.700][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-01-25 06:38:06.701][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:06.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:06.702][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:06.703][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-01-25 06:38:06.705][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-25 06:38:06.706][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2022-01-25 06:38:06.707][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:06.708][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-25 06:38:06.708][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:06.709][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-25 06:38:06.710][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-25 06:38:06.711][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-25 06:38:06.712][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-25 06:38:06.713][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-25 06:38:06.714][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:06.715][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-01-25 06:38:06.716][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-25 06:38:06.716][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:38:06.717][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:06.718][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-25 06:38:06.718][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-25 06:38:06.718][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-25 06:38:06.718][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-25 06:38:06.718][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-25 06:38:06.719][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-25 06:38:06.720][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-25 06:38:06.721][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-25 06:38:06.722][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-25 06:38:06.723][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-25 06:38:06.723][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-25 06:38:06.724][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-25 06:38:06.725][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:38:06.726][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-25 06:38:06.727][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-25 06:38:06.728][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-25 06:38:06.728][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:38:06.729][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-01-25 06:38:06.731][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-25 06:38:06.732][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-01-25 06:38:06.733][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:06.734][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-25 06:38:06.735][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:06.735][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-25 06:38:06.736][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-25 06:38:06.737][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-25 06:38:06.738][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-25 06:38:06.739][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-25 06:38:06.740][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:06.741][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-01-25 06:38:06.742][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-25 06:38:06.743][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:38:06.743][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:06.744][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-25 06:38:06.744][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-25 06:38:06.744][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-25 06:38:06.744][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-25 06:38:06.744][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-25 06:38:06.745][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-25 06:38:06.746][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-25 06:38:06.747][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-25 06:38:06.748][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-25 06:38:06.749][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-25 06:38:06.749][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-25 06:38:06.750][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-25 06:38:06.751][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:38:06.752][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-25 06:38:06.753][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-25 06:38:06.754][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-25 06:38:06.754][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:38:06.756][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-01-25 06:38:06.757][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:06.758][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2022-01-25 06:38:06.759][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:06.760][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-25 06:38:06.761][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:06.762][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-25 06:38:06.762][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-25 06:38:06.763][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-25 06:38:06.764][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-25 06:38:06.765][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-25 06:38:06.766][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-25 06:38:06.767][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-01-25 06:38:06.768][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-25 06:38:06.769][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:38:06.770][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:06.770][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:38:06.771][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-25 06:38:06.772][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-25 06:38:06.773][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-25 06:38:06.774][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-25 06:38:06.775][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-25 06:38:06.776][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-25 06:38:06.776][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-25 06:38:06.777][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:38:06.778][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-25 06:38:06.779][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-25 06:38:06.780][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-25 06:38:06.781][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:38:06.782][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-01-25 06:38:06.784][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:06.785][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-01-25 06:38:06.785][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:06.786][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-25 06:38:06.787][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:06.788][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-25 06:38:06.789][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-25 06:38:06.790][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-25 06:38:06.791][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-25 06:38:06.792][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-25 06:38:06.793][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-25 06:38:06.794][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-01-25 06:38:06.795][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-25 06:38:06.796][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:38:06.796][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:06.810][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:38:06.811][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-25 06:38:06.812][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-25 06:38:06.813][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-25 06:38:06.814][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-25 06:38:06.815][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-25 06:38:06.815][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-25 06:38:06.816][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-25 06:38:06.817][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:38:06.818][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-25 06:38:06.819][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-25 06:38:06.820][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-25 06:38:06.820][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:38:06.822][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-25 06:38:06.822][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:06.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:06.824][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:06.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:06.826][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:06.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:06.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:06.828][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:06.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:06.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:06.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:06.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:06.832][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:06.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:06.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:06.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:06.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:06.836][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:06.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:06.837][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:06.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:06.839][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:06.840][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:06.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:06.841][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:06.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:06.843][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:06.844][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:06.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:06.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:06.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:06.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:06.847][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:06.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:06.849][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:06.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:06.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:06.851][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:06.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:06.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:06.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:06.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:06.855][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:06.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:06.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:06.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:06.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:06.859][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:06.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:06.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:06.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:06.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:06.863][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:06.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:06.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:06.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:06.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:06.867][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:06.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:06.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:06.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:06.870][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:06.871][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:06.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:06.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:06.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:06.874][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[2022-01-25 06:38:06.875][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:06.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:06.876][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:06.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:06.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:06.879][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:06.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:06.880][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:06.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:06.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:06.883][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:06.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:06.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:06.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:06.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:06.887][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:06.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:06.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:06.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:06.890][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[2022-01-25 06:38:06.891][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-01-25 06:38:06.892][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-01-25 06:38:06.893][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-01-25 06:38:06.894][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-01-25 06:38:06.896][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-01-25 06:38:06.897][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-01-25 06:38:06.898][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-01-25 06:38:06.899][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-01-25 06:38:06.901][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-01-25 06:38:06.902][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-01-25 06:38:06.903][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-25 06:38:06.904][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-01-25 06:38:06.906][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-01-25 06:38:06.907][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-01-25 06:38:06.908][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-01-25 06:38:06.909][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-25 06:38:06.911][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-01-25 06:38:06.912][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-01-25 06:38:06.913][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-01-25 06:38:06.914][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-01-25 06:38:06.916][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-01-25 06:38:06.917][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-01-25 06:38:06.918][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-01-25 06:38:06.919][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-01-25 06:38:06.921][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-01-25 06:38:06.922][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-01-25 06:38:06.923][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-01-25 06:38:06.925][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-01-25 06:38:06.931][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-01-25 06:38:06.934][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-01-25 06:38:06.935][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-01-25 06:38:06.937][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-01-25 06:38:06.938][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-01-25 06:38:06.940][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-01-25 06:38:06.941][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-01-25 06:38:06.943][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-01-25 06:38:06.944][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-01-25 06:38:06.946][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-01-25 06:38:06.947][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-01-25 06:38:06.977][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-01-25 06:38:06.979][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-01-25 06:38:06.981][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-01-25 06:38:06.982][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-01-25 06:38:06.983][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-01-25 06:38:06.985][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-01-25 06:38:06.986][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-01-25 06:38:06.987][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-01-25 06:38:06.989][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-01-25 06:38:06.990][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-01-25 06:38:06.992][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-01-25 06:38:06.993][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-01-25 06:38:06.994][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-01-25 06:38:06.996][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-01-25 06:38:06.997][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-01-25 06:38:06.998][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-01-25 06:38:06.999][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-01-25 06:38:07.001][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-01-25 06:38:07.002][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-01-25 06:38:07.004][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-01-25 06:38:07.005][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-01-25 06:38:07.006][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-01-25 06:38:07.007][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-01-25 06:38:07.009][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-01-25 06:38:07.010][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-01-25 06:38:07.011][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-01-25 06:38:07.013][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-01-25 06:38:07.014][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-01-25 06:38:07.015][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-01-25 06:38:07.017][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-01-25 06:38:07.018][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-01-25 06:38:07.019][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-01-25 06:38:07.021][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-01-25 06:38:07.022][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-01-25 06:38:07.023][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-01-25 06:38:07.024][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-01-25 06:38:07.026][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-01-25 06:38:07.027][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-01-25 06:38:07.029][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-01-25 06:38:07.030][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-01-25 06:38:07.031][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-01-25 06:38:07.033][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-01-25 06:38:07.034][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-01-25 06:38:07.035][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-01-25 06:38:07.037][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-01-25 06:38:07.038][initialize] This is biodb version 1.2.2.
biodb.DEBUG[2022-01-25 06:38:07.039][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-25 06:38:07.040][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:07.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:07.042][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:07.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:07.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:07.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:07.045][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:07.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:07.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:07.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:07.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:07.050][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:07.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:07.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:07.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:07.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:07.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:07.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:07.056][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:07.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:07.057][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:07.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:07.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:07.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:07.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:07.061][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:07.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:07.063][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:07.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:07.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:07.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:07.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:07.067][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:07.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:07.069][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:07.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:07.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:07.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:07.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:07.073][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:07.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:07.075][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:07.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:07.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:07.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:07.078][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:07.079][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:07.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:07.081][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:07.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:07.083][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:07.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:07.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:07.085][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:07.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:07.087][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:07.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:07.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:07.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:07.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:07.091][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:07.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:07.093][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:07.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:07.095][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:07.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:07.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:07.097][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:07.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:07.099][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:07.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:07.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:07.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:07.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:07.103][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:07.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:07.105][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:07.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:07.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:07.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:07.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:07.109][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:07.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:07.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:07.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:07.112][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:07.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:07.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:07.114][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:07.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:07.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:07.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:07.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:07.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:07.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:07.134][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:07.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:07.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:07.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:07.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:07.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:07.139][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.DEBUG[2022-01-25 06:38:07.140][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:07.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:07.141][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:07.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:07.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:07.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:07.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:07.145][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:07.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:07.147][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:07.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:07.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:07.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:07.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:07.150][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:07.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:07.152][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:07.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:07.153][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:07.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:07.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:07.156][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.14-bioc/R/library/biodbLipidmaps/definitions.yml".
biodb.DEBUG[2022-01-25 06:38:07.158][self$getDbsInfo()$define] Define connector lipidmaps.structure.
biodb.DEBUG[2022-01-25 06:38:07.159][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-25 06:38:07.160][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2022-01-25 06:38:07.161][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:07.162][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-25 06:38:07.163][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:07.164][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-25 06:38:07.165][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:07.166][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-25 06:38:07.166][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-25 06:38:07.167][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-25 06:38:07.168][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:07.169][self$setPropertyValue] Setting property "name" to "LIPID MAPS Structure".
biodb.DEBUG[2022-01-25 06:38:07.170][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-25 06:38:07.171][self$setPropertyValue] Setting property "parsing.expr" to "LM_ID".
biodb.DEBUG[2022-01-25 06:38:07.171][self$setPropertyValue] Setting property "parsing.expr" to "CHEBI_ID".
biodb.DEBUG[2022-01-25 06:38:07.171][self$setPropertyValue] Setting property "parsing.expr" to "HMDBID".
biodb.DEBUG[2022-01-25 06:38:07.171][self$setPropertyValue] Setting property "parsing.expr" to "KEGG_ID".
biodb.DEBUG[2022-01-25 06:38:07.171][self$setPropertyValue] Setting property "parsing.expr" to "PUBCHEM_COMPOUND_ID".
biodb.DEBUG[2022-01-25 06:38:07.171][self$setPropertyValue] Setting property "parsing.expr" to "SYSTEMATIC_NAME".
biodb.DEBUG[2022-01-25 06:38:07.171][self$setPropertyValue] Setting property "parsing.expr" to "MASS".
biodb.DEBUG[2022-01-25 06:38:07.171][self$setPropertyValue] Setting property "parsing.expr" to "FORMULA".
biodb.DEBUG[2022-01-25 06:38:07.171][self$setPropertyValue] Setting property "parsing.expr" to "COMMON_NAME".
biodb.DEBUG[2022-01-25 06:38:07.172][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2022-01-25 06:38:07.173][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-25 06:38:07.173][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-25 06:38:07.174][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-25 06:38:07.175][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-25 06:38:07.175][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-25 06:38:07.176][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-25 06:38:07.177][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-25 06:38:07.178][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-25 06:38:07.179][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-25 06:38:07.180][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/data/".
biodb.DEBUG[2022-01-25 06:38:07.180][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/databases/lmsd/".
biodb.DEBUG[2022-01-25 06:38:07.180][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-25 06:38:07.181][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-25 06:38:07.182][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:07.183][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:38:07.184][self$getEntryFields()$define] Define field lipidmaps.structure.id.
biodb.DEBUG[2022-01-25 06:38:07.185][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-25 06:38:07.188][initialize] Initialize connector lipidmaps.structure.
biodb.DEBUG[2022-01-25 06:38:07.189][initialize] Register connector lipidmaps.structure with the request scheduler
biodb.DEBUG[2022-01-25 06:38:07.190][private$bdb$getRequestScheduler()$re ...] Register connector lipidmaps.structure.
biodb.DEBUG[2022-01-25 06:38:07.192][private$addConnectorRules] Create new rule for URL "www.lipidmaps.org" of connector "lipidmaps.structure".
biodb.DEBUG[2022-01-25 06:38:07.193][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2022-01-25 06:38:07.194][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2022-01-25 06:38:07.195][rule$addConnector] Connector "lipidmaps.structure" is already listed in rule "www.lipidmaps.org".
biodb.DEBUG[2022-01-25 06:38:07.196][biodb$getFactory()$createConn] Creating new connector lipidmaps.structure for database class lipidmaps.structure .
biodb.INFO [2022-01-25 06:38:07.197][biodb::testThat] 
biodb.INFO [2022-01-25 06:38:07.198][biodb::testThat] Running test function  test_wsLmsdRecord_searchByName  (" wsLmsdRecord() can search by name. ").
biodb.INFO [2022-01-25 06:38:07.199][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-25 06:38:07.200][biodb::testThat] 
biodb.DEBUG[2022-01-25 06:38:07.222][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[2022-01-25 06:38:07.226][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:38:07.227][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:38:07.228][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=anhydride".
biodb.TRACE[2022-01-25 06:38:07.868][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=anhydride).
biodb.DEBUG[2022-01-25 06:38:08.552][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-01-25 06:38:08.564][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/cfd52aa1c2e3525a5defd7b7e8bd8bb8.content"
biodb.TRACE[2022-01-25 06:38:08.582][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/cfd52aa1c2e3525a5defd7b7e8bd8bb8.request"
biodb.DEBUG[2022-01-25 06:38:08.621][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=fatty".
biodb.DEBUG[2022-01-25 06:38:08.624][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:38:08.625][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:38:08.627][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=fatty".
biodb.TRACE[2022-01-25 06:38:09.268][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[2022-01-25 06:38:09.946][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-01-25 06:38:09.958][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/4ae22a112f570b93d2a956448ab71bd0.content"
biodb.TRACE[2022-01-25 06:38:09.976][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/4ae22a112f570b93d2a956448ab71bd0.request"
biodb.INFO [2022-01-25 06:38:09.988][biodb::testThat] 
biodb.INFO [2022-01-25 06:38:09.989][biodb::testThat] Running test function  test_wsLmsdRecord  (" Test web service wsLmsdRecord. ").
biodb.INFO [2022-01-25 06:38:09.991][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-25 06:38:09.992][biodb::testThat] 
biodb.INFO [2022-01-25 06:38:10.004][biodb::testThat] 
biodb.INFO [2022-01-25 06:38:10.005][biodb::testThat] Running test function  test_wsLmsdSearch  (" Test web service wsLmsdSearch. ").
biodb.INFO [2022-01-25 06:38:10.007][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-25 06:38:10.008][biodb::testThat] 
biodb.DEBUG[2022-01-25 06:38:10.036][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[2022-01-25 06:38:10.042][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:38:10.043][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:38:10.044][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&LMID=LMSL02000001".
biodb.TRACE[2022-01-25 06:38:10.508][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&LMID=LMSL02000001).
biodb.DEBUG[2022-01-25 06:38:11.031][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-01-25 06:38:11.045][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/cb051dd8deddba61124ac06645747646.content"
biodb.TRACE[2022-01-25 06:38:11.065][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/cb051dd8deddba61124ac06645747646.request"
biodb.DEBUG[2022-01-25 06:38:11.109][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&LMID=LMSL02000001".
biodb.DEBUG[2022-01-25 06:38:11.112][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-25 06:38:11.114][cch$loadFileContent] Trying to load 1 files from cache: [1]: "cb051dd8deddba61124ac06645747646".
biodb.TRACE[2022-01-25 06:38:11.115][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-25 06:38:11.116][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/cb051dd8deddba61124ac06645747646.content".
biodb.DEBUG[2022-01-25 06:38:11.140][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&LMID=LMSL02000001".
biodb.DEBUG[2022-01-25 06:38:11.143][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:38:11.144][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:38:11.145][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&LMID=LMSL02000001".
biodb.TRACE[2022-01-25 06:38:11.611][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[2022-01-25 06:38:12.118][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-01-25 06:38:12.126][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/9edcc233717c530cf0cbf5f73b9c3fc7.content"
biodb.TRACE[2022-01-25 06:38:12.139][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/9edcc233717c530cf0cbf5f73b9c3fc7.request"
biodb.DEBUG[2022-01-25 06:38:12.165][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[2022-01-25 06:38:12.168][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:38:12.169][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:38:12.176][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&Name=acid".
biodb.TRACE[2022-01-25 06:38:13.490][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&Name=acid).
biodb.DEBUG[2022-01-25 06:38:16.555][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-01-25 06:38:16.564][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/be9130a77f849b73da505cd10830451e.content"
biodb.TRACE[2022-01-25 06:38:16.579][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/be9130a77f849b73da505cd10830451e.request"
biodb.DEBUG[2022-01-25 06:38:16.650][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&Name=acid&ExactMass=60.8&ExactMassOffSet=6".
biodb.DEBUG[2022-01-25 06:38:16.653][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:38:16.654][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:38:16.655][private$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[2022-01-25 06:38:17.970][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[2022-01-25 06:38:20.802][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-01-25 06:38:20.811][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/6821b039f49696a2484834eb67daa971.content"
biodb.TRACE[2022-01-25 06:38:20.826][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/6821b039f49696a2484834eb67daa971.request"
biodb.INFO [2022-01-25 06:38:20.878][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2022-01-25 06:38:20.879][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector lipidmaps.structure from the request scheduler
biodb.INFO [2022-01-25 06:38:20.881][self$deleteConn] Connector "lipidmaps.structure" deleted.
biodb.DEBUG[2022-01-25 06:38:20.881][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-01-25 06:38:20.882][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:20.883][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:20.884][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:20.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:20.885][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:20.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2022-01-25 06:38:20.890][biodb::testContext] 
biodb.INFO [2022-01-25 06:38:20.891][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-25 06:38:20.892][biodb::testContext] Test context - Some other custom tests
biodb.INFO [2022-01-25 06:38:20.892][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-25 06:38:20.893][biodb::testContext] 
biodb.INFO [2022-01-25 06:38:20.899][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.2.2.
biodb.DEBUG[2022-01-25 06:38:20.900][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.14-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2022-01-25 06:38:20.904][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-25 06:38:20.905][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-01-25 06:38:20.906][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-01-25 06:38:20.907][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:20.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:20.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:20.909][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-01-25 06:38:20.910][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-01-25 06:38:20.911][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:20.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:20.913][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[2022-01-25 06:38:20.914][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-01-25 06:38:20.915][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-01-25 06:38:20.915][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:20.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:20.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:20.918][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-01-25 06:38:20.919][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-01-25 06:38:20.919][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-01-25 06:38:20.920][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:20.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:20.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:20.923][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-01-25 06:38:20.923][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-01-25 06:38:20.924][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-01-25 06:38:20.925][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:20.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:20.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:20.928][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-01-25 06:38:20.928][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-01-25 06:38:20.929][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:20.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:20.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:20.931][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-01-25 06:38:20.932][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-01-25 06:38:20.933][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-01-25 06:38:20.934][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:20.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:20.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:20.936][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-01-25 06:38:20.937][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-01-25 06:38:20.938][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:20.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:20.940][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[2022-01-25 06:38:20.940][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-01-25 06:38:20.941][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-01-25 06:38:20.942][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-01-25 06:38:20.943][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:20.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:20.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:20.945][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-01-25 06:38:20.946][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-01-25 06:38:20.947][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-01-25 06:38:20.948][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-01-25 06:38:20.949][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-01-25 06:38:20.950][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-01-25 06:38:20.951][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:20.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:20.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:20.953][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-01-25 06:38:20.954][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-01-25 06:38:20.955][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:20.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:20.956][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:20.957][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-01-25 06:38:20.958][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-01-25 06:38:20.959][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:20.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:20.960][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:20.961][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-01-25 06:38:20.962][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-01-25 06:38:20.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:20.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:20.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:20.965][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-01-25 06:38:20.966][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-01-25 06:38:20.967][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:20.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:20.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:20.969][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-01-25 06:38:20.970][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-01-25 06:38:20.971][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:20.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:20.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:20.974][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-01-25 06:38:20.975][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-01-25 06:38:20.979][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2022-01-25 06:38:20.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:20.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:20.982][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[2022-01-25 06:38:20.982][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-01-25 06:38:20.983][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-01-25 06:38:20.996][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-01-25 06:38:20.998][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:20.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:20.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:21.000][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-01-25 06:38:21.002][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-25 06:38:21.003][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2022-01-25 06:38:21.004][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:21.005][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-25 06:38:21.006][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:21.007][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-25 06:38:21.007][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-25 06:38:21.008][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-25 06:38:21.009][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-25 06:38:21.010][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-25 06:38:21.011][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:21.012][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-01-25 06:38:21.013][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-25 06:38:21.014][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:38:21.015][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:21.015][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-25 06:38:21.015][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-25 06:38:21.015][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-25 06:38:21.015][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-25 06:38:21.015][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-25 06:38:21.016][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-25 06:38:21.017][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-25 06:38:21.018][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-25 06:38:21.019][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-25 06:38:21.020][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-25 06:38:21.020][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-25 06:38:21.021][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-25 06:38:21.022][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:38:21.023][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-25 06:38:21.024][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-25 06:38:21.025][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-25 06:38:21.025][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:38:21.026][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-01-25 06:38:21.028][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-25 06:38:21.029][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-01-25 06:38:21.030][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:21.031][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-25 06:38:21.032][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:21.032][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-25 06:38:21.033][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-25 06:38:21.034][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-25 06:38:21.035][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-25 06:38:21.036][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-25 06:38:21.037][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:21.038][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-01-25 06:38:21.039][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-25 06:38:21.039][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:38:21.040][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:21.041][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-25 06:38:21.041][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-25 06:38:21.041][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-25 06:38:21.041][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-25 06:38:21.041][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-25 06:38:21.042][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-25 06:38:21.043][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-25 06:38:21.044][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-25 06:38:21.044][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-25 06:38:21.045][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-25 06:38:21.046][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-25 06:38:21.047][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-25 06:38:21.048][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:38:21.049][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-25 06:38:21.049][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-25 06:38:21.050][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-25 06:38:21.051][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:38:21.052][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-01-25 06:38:21.054][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:21.055][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2022-01-25 06:38:21.055][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:21.056][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-25 06:38:21.057][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:21.058][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-25 06:38:21.059][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-25 06:38:21.060][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-25 06:38:21.061][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-25 06:38:21.062][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-25 06:38:21.062][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-25 06:38:21.063][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-01-25 06:38:21.064][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-25 06:38:21.065][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:38:21.066][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:21.067][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:38:21.068][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-25 06:38:21.068][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-25 06:38:21.069][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-25 06:38:21.070][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-25 06:38:21.071][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-25 06:38:21.072][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-25 06:38:21.072][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-25 06:38:21.073][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:38:21.074][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-25 06:38:21.075][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-25 06:38:21.076][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-25 06:38:21.076][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:38:21.077][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-01-25 06:38:21.079][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:21.080][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-01-25 06:38:21.081][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:21.082][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-25 06:38:21.082][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:21.083][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-25 06:38:21.084][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-25 06:38:21.085][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-25 06:38:21.086][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-25 06:38:21.087][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-25 06:38:21.088][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-25 06:38:21.089][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-01-25 06:38:21.089][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-25 06:38:21.090][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:38:21.091][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:21.092][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:38:21.093][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-25 06:38:21.094][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-25 06:38:21.095][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-25 06:38:21.095][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-25 06:38:21.096][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-25 06:38:21.097][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-25 06:38:21.098][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-25 06:38:21.099][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:38:21.100][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-25 06:38:21.100][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-25 06:38:21.101][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-25 06:38:21.102][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:38:21.103][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-25 06:38:21.104][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:21.105][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[2022-01-25 06:38:21.106][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:21.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:21.108][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:21.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:21.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:21.110][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:21.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:21.112][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:21.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:21.113][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:21.114][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:21.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:21.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:21.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:21.117][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[2022-01-25 06:38:21.118][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:21.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:21.120][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:21.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:21.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:21.122][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:21.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:21.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:21.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:21.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:21.139][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:21.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:21.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:21.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:21.142][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[2022-01-25 06:38:21.143][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:21.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:21.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:21.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:21.146][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[2022-01-25 06:38:21.147][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:21.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:21.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:21.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:21.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:21.150][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:21.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:21.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:21.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:21.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:21.154][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:21.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:21.156][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:21.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:21.157][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[2022-01-25 06:38:21.158][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:21.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:21.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:21.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:21.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:21.162][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:21.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:21.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:21.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:21.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:21.166][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:21.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:21.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:21.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:21.169][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[2022-01-25 06:38:21.169][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:21.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:21.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:21.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:21.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:21.173][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:21.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:21.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:21.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:21.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:21.177][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:21.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:21.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:21.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:21.180][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[2022-01-25 06:38:21.181][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:21.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:21.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:21.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:21.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:21.185][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-01-25 06:38:21.186][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-01-25 06:38:21.187][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-01-25 06:38:21.189][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-01-25 06:38:21.190][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-01-25 06:38:21.191][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-01-25 06:38:21.192][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-01-25 06:38:21.193][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-01-25 06:38:21.195][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-01-25 06:38:21.196][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-01-25 06:38:21.197][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-25 06:38:21.198][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-01-25 06:38:21.199][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-01-25 06:38:21.201][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-01-25 06:38:21.202][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-01-25 06:38:21.203][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-25 06:38:21.204][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-01-25 06:38:21.205][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-01-25 06:38:21.207][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-01-25 06:38:21.208][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-01-25 06:38:21.209][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-01-25 06:38:21.210][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-01-25 06:38:21.211][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-01-25 06:38:21.213][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-01-25 06:38:21.214][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-01-25 06:38:21.215][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-01-25 06:38:21.216][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-01-25 06:38:21.217][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-01-25 06:38:21.219][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-01-25 06:38:21.220][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-01-25 06:38:21.221][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-01-25 06:38:21.222][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-01-25 06:38:21.223][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-01-25 06:38:21.225][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-01-25 06:38:21.226][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-01-25 06:38:21.227][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-01-25 06:38:21.228][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-01-25 06:38:21.229][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-01-25 06:38:21.231][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-01-25 06:38:21.232][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-01-25 06:38:21.233][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-01-25 06:38:21.234][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-01-25 06:38:21.236][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-01-25 06:38:21.237][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-01-25 06:38:21.238][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-01-25 06:38:21.239][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-01-25 06:38:21.241][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-01-25 06:38:21.242][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-01-25 06:38:21.243][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-01-25 06:38:21.244][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-01-25 06:38:21.246][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-01-25 06:38:21.247][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-01-25 06:38:21.248][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-01-25 06:38:21.250][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-01-25 06:38:21.251][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-01-25 06:38:21.252][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-01-25 06:38:21.253][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-01-25 06:38:21.255][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-01-25 06:38:21.256][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-01-25 06:38:21.257][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-01-25 06:38:21.258][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-01-25 06:38:21.260][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-01-25 06:38:21.261][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-01-25 06:38:21.262][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-01-25 06:38:21.275][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-01-25 06:38:21.276][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-01-25 06:38:21.278][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-01-25 06:38:21.279][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-01-25 06:38:21.280][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-01-25 06:38:21.281][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-01-25 06:38:21.282][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-01-25 06:38:21.284][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-01-25 06:38:21.285][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-01-25 06:38:21.286][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-01-25 06:38:21.287][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-01-25 06:38:21.288][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-01-25 06:38:21.289][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-01-25 06:38:21.291][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-01-25 06:38:21.292][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-01-25 06:38:21.293][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-01-25 06:38:21.294][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-01-25 06:38:21.295][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-01-25 06:38:21.297][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-01-25 06:38:21.298][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-01-25 06:38:21.299][initialize] This is biodb version 1.2.2.
biodb.DEBUG[2022-01-25 06:38:21.300][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-25 06:38:21.301][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:21.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:21.303][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:21.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:21.304][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:21.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:21.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:21.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:21.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:21.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:21.309][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[2022-01-25 06:38:21.310][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:21.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:21.311][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:21.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:21.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:21.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:21.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:21.315][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:21.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:21.316][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:21.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:21.318][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:21.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:21.320][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:21.320][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:21.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:21.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:21.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:21.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:21.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:21.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:21.326][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:21.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:21.327][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:21.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:21.329][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:21.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:21.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:21.331][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:21.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:21.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:21.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:21.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:21.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:21.336][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:21.336][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:21.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:21.338][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:21.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:21.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:21.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:21.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:21.342][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:21.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:21.343][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:21.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:21.345][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:21.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:21.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:21.347][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:21.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:21.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:21.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:21.350][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:21.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:21.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:21.353][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:21.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:21.354][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:21.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:21.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:21.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:21.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:21.358][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:21.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:21.359][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:21.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:21.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:21.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:21.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:21.363][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:21.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:21.365][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:21.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:21.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:21.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:21.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:21.369][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:21.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:21.370][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:21.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:21.372][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:21.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:21.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:21.374][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:21.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:21.376][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:21.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:21.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:21.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:21.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:21.380][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:21.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:21.381][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:21.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:21.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:21.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:21.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:21.385][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:21.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:21.387][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:21.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:21.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:21.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:21.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:21.391][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-25 06:38:21.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:21.392][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:21.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:21.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:21.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:21.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:21.397][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.14-bioc/R/library/biodbLipidmaps/definitions.yml".
biodb.DEBUG[2022-01-25 06:38:21.398][self$getDbsInfo()$define] Define connector lipidmaps.structure.
biodb.DEBUG[2022-01-25 06:38:21.412][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-25 06:38:21.413][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2022-01-25 06:38:21.414][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:21.415][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-25 06:38:21.416][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:21.417][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-25 06:38:21.418][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:21.419][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-25 06:38:21.420][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-25 06:38:21.421][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-25 06:38:21.422][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:21.422][self$setPropertyValue] Setting property "name" to "LIPID MAPS Structure".
biodb.DEBUG[2022-01-25 06:38:21.423][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-25 06:38:21.425][self$setPropertyValue] Setting property "parsing.expr" to "LM_ID".
biodb.DEBUG[2022-01-25 06:38:21.425][self$setPropertyValue] Setting property "parsing.expr" to "CHEBI_ID".
biodb.DEBUG[2022-01-25 06:38:21.425][self$setPropertyValue] Setting property "parsing.expr" to "HMDBID".
biodb.DEBUG[2022-01-25 06:38:21.425][self$setPropertyValue] Setting property "parsing.expr" to "KEGG_ID".
biodb.DEBUG[2022-01-25 06:38:21.425][self$setPropertyValue] Setting property "parsing.expr" to "PUBCHEM_COMPOUND_ID".
biodb.DEBUG[2022-01-25 06:38:21.425][self$setPropertyValue] Setting property "parsing.expr" to "SYSTEMATIC_NAME".
biodb.DEBUG[2022-01-25 06:38:21.425][self$setPropertyValue] Setting property "parsing.expr" to "MASS".
biodb.DEBUG[2022-01-25 06:38:21.425][self$setPropertyValue] Setting property "parsing.expr" to "FORMULA".
biodb.DEBUG[2022-01-25 06:38:21.425][self$setPropertyValue] Setting property "parsing.expr" to "COMMON_NAME".
biodb.DEBUG[2022-01-25 06:38:21.426][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2022-01-25 06:38:21.427][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-25 06:38:21.427][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-25 06:38:21.427][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-25 06:38:21.429][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-25 06:38:21.430][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-25 06:38:21.431][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-25 06:38:21.431][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-25 06:38:21.432][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-25 06:38:21.433][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-25 06:38:21.434][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/data/".
biodb.DEBUG[2022-01-25 06:38:21.434][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/databases/lmsd/".
biodb.DEBUG[2022-01-25 06:38:21.435][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-25 06:38:21.436][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-25 06:38:21.436][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2022-01-25 06:38:21.437][self$setPropertyValue] 
biodb.DEBUG[2022-01-25 06:38:21.438][self$getEntryFields()$define] Define field lipidmaps.structure.id.
biodb.DEBUG[2022-01-25 06:38:21.440][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-25 06:38:21.443][initialize] Initialize connector lipidmaps.structure.
biodb.DEBUG[2022-01-25 06:38:21.444][initialize] Register connector lipidmaps.structure with the request scheduler
biodb.DEBUG[2022-01-25 06:38:21.445][private$bdb$getRequestScheduler()$re ...] Register connector lipidmaps.structure.
biodb.DEBUG[2022-01-25 06:38:21.446][private$addConnectorRules] Create new rule for URL "www.lipidmaps.org" of connector "lipidmaps.structure".
biodb.DEBUG[2022-01-25 06:38:21.447][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2022-01-25 06:38:21.448][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2022-01-25 06:38:21.449][rule$addConnector] Connector "lipidmaps.structure" is already listed in rule "www.lipidmaps.org".
biodb.DEBUG[2022-01-25 06:38:21.450][biodb$getFactory()$createConn] Creating new connector lipidmaps.structure for database class lipidmaps.structure .
biodb.INFO [2022-01-25 06:38:21.451][biodb::testThat] 
biodb.INFO [2022-01-25 06:38:21.452][biodb::testThat] Running test function  test_noOtherConnNeeded  (" No other connector is needed. ").
biodb.INFO [2022-01-25 06:38:21.453][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-25 06:38:21.454][biodb::testThat] 
biodb.DEBUG[2022-01-25 06:38:21.476][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[2022-01-25 06:38:21.480][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-25 06:38:21.481][cch$loadFileContent] Trying to load 1 files from cache: [1]: "13e15253cf65619ae7a700f5534f6030".
biodb.TRACE[2022-01-25 06:38:21.482][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-25 06:38:21.528][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/13e15253cf65619ae7a700f5534f6030.content".
biodb.DEBUG[2022-01-25 06:38:22.176][private$loadEntries] Creating entries from ids [2]: "LMFA00000001, LMFA00000002".
biodb.DEBUG[2022-01-25 06:38:22.177][conn$getEntryContent] Get LIPID MAPS Structure entry content(s) for 2 id(s)...
biodb.TRACE[2022-01-25 06:38:22.195][cch$loadFileContent] Trying to load 2 files from cache: [2]: "LMFA00000001, LMFA00000002".
biodb.TRACE[2022-01-25 06:38:22.197][cch$loadFileContent] file.exist = [2]: "FALSE, TRUE".
biodb.TRACE[2022-01-25 06:38:22.198][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA00000002.tsv".
biodb.DEBUG[2022-01-25 06:38:22.199][conn$getEntryContent] 1 LIPID MAPS Structure entry content(s) loaded from cache.
biodb.DEBUG[2022-01-25 06:38:22.201][conn$getEntryContent] 1 entry content(s) need to be fetched from LIPID MAPS Structure database "https://www.lipidmaps.org/data/".
biodb.DEBUG[2022-01-25 06:38:22.202][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-25 06:38:22.203][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-25 06:38:22.206][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-25 06:38:22.207][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:22.208][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:22.210][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:22.211][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:22.212][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:22.212][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-25 06:38:22.214][scheduler$sendRequest] Getting content of get URL request "https://www.lipidmaps.org/databases/lmsd/LMFA00000001?format=tsv".
biodb.DEBUG[2022-01-25 06:38:22.240][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-25 06:38:22.242][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-25 06:38:22.243][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/LMFA00000001?format=tsv".
biodb.TRACE[2022-01-25 06:38:22.874][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/databases/lmsd/LMFA00000001?format=tsv).
biodb.DEBUG[2022-01-25 06:38:23.475][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-01-25 06:38:23.494][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f441f4b59d8c1fbcb63f4f502d20d459.content"
biodb.TRACE[2022-01-25 06:38:23.513][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f441f4b59d8c1fbcb63f4f502d20d459.request"
biodb.TRACE[2022-01-25 06:38:23.531][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA00000001.tsv"
biodb.DEBUG[2022-01-25 06:38:23.538][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-25 06:38:23.553][self$createEntryFromContent] Creating LIPID MAPS Structure entries from 2 content(s).
biodb.DEBUG[2022-01-25 06:38:23.555][self$createEntryFromContent] Parsing 2 LIPID MAPS Structure entries.
biodb.DEBUG[2022-01-25 06:38:23.557][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-25 06:38:23.559][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:23.560][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:23.563][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:23.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:23.565][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:23.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-25 06:38:23.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:38:23.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:38:23.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.611][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:38:23.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:38:23.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.623][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-25 06:38:23.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-25 06:38:23.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.629][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-25 06:38:23.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-25 06:38:23.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.635][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-25 06:38:23.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-25 06:38:23.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.640][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:38:23.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:38:23.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.685][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:38:23.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:38:23.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.697][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:38:23.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:38:23.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.704][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:38:23.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:38:23.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.715][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-01-25 06:38:23.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:38:23.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.721][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-01-25 06:38:23.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:38:23.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.733][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-25 06:38:23.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-25 06:38:23.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.739][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-25 06:38:23.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-25 06:38:23.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.754][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:38:23.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:38:23.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.761][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:38:23.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:38:23.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.773][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-01-25 06:38:23.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:38:23.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.777][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2022-01-25 06:38:23.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:38:23.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.782][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:38:23.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:38:23.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.786][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:38:23.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:38:23.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.790][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-01-25 06:38:23.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:38:23.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.799][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:38:23.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:38:23.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.803][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:38:23.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:38:23.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.828][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:38:23.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:38:23.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.832][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:38:23.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:38:23.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.836][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:38:23.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:38:23.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.848][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:38:23.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:38:23.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.854][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:38:23.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:38:23.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:38:23.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:38:23.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.866][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:38:23.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:38:23.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.872][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:38:23.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:38:23.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:38:23.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:38:23.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.884][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:38:23.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:38:23.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-25 06:38:23.897][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-25 06:38:23.899][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:23.900][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:23.903][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:23.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:23.907][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:23.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-25 06:38:23.916][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:38:23.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:38:23.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.924][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:38:23.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:38:23.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-25 06:38:23.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-25 06:38:23.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.947][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-25 06:38:23.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-25 06:38:23.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.964][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-25 06:38:23.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-25 06:38:23.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.974][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-25 06:38:23.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-25 06:38:23.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.983][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:38:23.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:38:23.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:23.991][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:38:23.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:38:23.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:23.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.008][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:38:24.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:38:24.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.018][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:38:24.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:38:24.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.035][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-01-25 06:38:24.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:38:24.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.043][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-01-25 06:38:24.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:38:24.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.059][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-25 06:38:24.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-25 06:38:24.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.068][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-25 06:38:24.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-25 06:38:24.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.085][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:38:24.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:38:24.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.124][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:38:24.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:38:24.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.141][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-01-25 06:38:24.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:38:24.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.150][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2022-01-25 06:38:24.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:38:24.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.158][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:38:24.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:38:24.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.167][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:38:24.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:38:24.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.174][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-01-25 06:38:24.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:38:24.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.189][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:38:24.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:38:24.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.198][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:38:24.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:38:24.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.205][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:38:24.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:38:24.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.213][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:38:24.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:38:24.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:38:24.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:38:24.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.227][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:38:24.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:38:24.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.234][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:38:24.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:38:24.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.249][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:38:24.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:38:24.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:38:24.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:38:24.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:38:24.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:38:24.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:38:24.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:38:24.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.280][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:38:24.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:38:24.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:38:24.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:38:24.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-25 06:38:24.294][self$createEntryFromContent] Accession numbers: LMFA00000001, LMFA00000002.
biodb.DEBUG[2022-01-25 06:38:24.298][conn$getBiodb()$entriesToDataframe] 2 entrie(s) to convert in data frame.
biodb.DEBUG[2022-01-25 06:38:24.302][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-25 06:38:24.303][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:24.305][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:24.309][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:24.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:24.313][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:24.315][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-25 06:38:24.319][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-25 06:38:24.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-25 06:38:24.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.326][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-25 06:38:24.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-25 06:38:24.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.333][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-25 06:38:24.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-25 06:38:24.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.341][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-25 06:38:24.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-25 06:38:24.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.348][private$selectFields] Fields none
biodb.TRACE[2022-01-25 06:38:24.350][private$selectFields] 
biodb.TRACE[2022-01-25 06:38:24.352][private$selectFields] Fields is null: TRUE
biodb.TRACE[2022-01-25 06:38:24.354][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-25 06:38:24.356][private$selectFields] Fields [7]: "accession, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, name, lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:38:24.358][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:38:24.360][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:38:24.362][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.364][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.365][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:38:24.368][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:38:24.370][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.371][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.373][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:38:24.376][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:38:24.377][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.379][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.381][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:38:24.383][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:38:24.385][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.387][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.389][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-25 06:38:24.391][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-25 06:38:24.392][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.394][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.396][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:38:24.423][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:38:24.425][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.427][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.429][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:38:24.431][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:38:24.432][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.434][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.436][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:38:24.438][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:38:24.439][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.441][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.442][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:38:24.444][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:38:24.445][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.447][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.448][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:38:24.450][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:38:24.452][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.453][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.455][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:38:24.456][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:38:24.458][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.460][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.461][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-25 06:38:24.463][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-25 06:38:24.464][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.466][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.468][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:38:24.469][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:38:24.471][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.472][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.474][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:38:24.476][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:38:24.477][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.479][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.480][private$selectFields] Fields [7]: "accession, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, name, lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:38:24.482][private$organizeFieldsByGroups] Fields [7]: "accession, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, name, lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:38:24.483][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:38:24.485][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:38:24.486][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.488][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.489][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:38:24.491][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:38:24.492][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.494][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.495][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:38:24.497][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:38:24.499][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.500][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.502][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:38:24.503][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:38:24.505][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.506][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.508][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-25 06:38:24.509][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-25 06:38:24.511][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.512][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.514][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:38:24.515][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:38:24.517][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.519][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.521][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:38:24.523][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:38:24.525][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.527][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.529][private$organizeFieldsByGroups] Groups [2]: "c("accession", "ncbi.pubchem.comp.id", "comp.iupac.name.syst", "monoisotopic.mass", "formula", "name", "lipidmaps.structure.id"), list()"
biodb.TRACE[2022-01-25 06:38:24.531][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:38:24.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:38:24.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:38:24.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:38:24.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.547][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:38:24.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:38:24.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.554][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:38:24.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:38:24.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.562][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:38:24.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:38:24.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.570][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:38:24.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:38:24.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.579][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:38:24.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:38:24.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.588][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:38:24.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:38:24.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.596][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:38:24.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:38:24.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.604][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:38:24.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:38:24.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.611][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:38:24.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:38:24.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.619][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:38:24.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:38:24.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.627][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-25 06:38:24.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-25 06:38:24.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.634][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-25 06:38:24.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-25 06:38:24.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.640][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-25 06:38:24.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-25 06:38:24.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.648][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:38:24.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:38:24.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.655][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:38:24.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:38:24.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.661][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:38:24.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:38:24.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.668][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:38:24.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:38:24.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.704][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:38:24.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:38:24.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.714][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:38:24.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:38:24.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.733][private$entriesToListOfDataframes] Entry converted to data frame: [1, 7]: [accession, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, ...] [LMFA00000001, 10930192, 2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride, 626.491025, C40H66O5, ...].
biodb.DEBUG[2022-01-25 06:38:24.735][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-25 06:38:24.736][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:24.738][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:24.740][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:24.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:24.743][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:24.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-25 06:38:24.747][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-25 06:38:24.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-25 06:38:24.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.753][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-25 06:38:24.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-25 06:38:24.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.759][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-25 06:38:24.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-25 06:38:24.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.766][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-25 06:38:24.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-25 06:38:24.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.771][private$selectFields] Fields none
biodb.TRACE[2022-01-25 06:38:24.773][private$selectFields] 
biodb.TRACE[2022-01-25 06:38:24.774][private$selectFields] Fields is null: TRUE
biodb.TRACE[2022-01-25 06:38:24.775][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-25 06:38:24.776][private$selectFields] Fields [8]: "accession, chebi.id, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, name, lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:38:24.778][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:38:24.779][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:38:24.781][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.782][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.783][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-25 06:38:24.785][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-25 06:38:24.786][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.787][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.788][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:38:24.790][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:38:24.791][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.793][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.794][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:38:24.795][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:38:24.797][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.798][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.799][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:38:24.801][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:38:24.802][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.804][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.805][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-25 06:38:24.806][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-25 06:38:24.808][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.809][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.810][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:38:24.812][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:38:24.813][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.814][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.816][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:38:24.817][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:38:24.819][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.820][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.821][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:38:24.823][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:38:24.824][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.826][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.827][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-25 06:38:24.828][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-25 06:38:24.830][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.831][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.832][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:38:24.833][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:38:24.835][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.836][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.837][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:38:24.838][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:38:24.840][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.841][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.842][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:38:24.844][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:38:24.845][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.846][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.847][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-25 06:38:24.849][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-25 06:38:24.850][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.852][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.853][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:38:24.854][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:38:24.856][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.857][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.859][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:38:24.860][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:38:24.862][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.863][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.865][private$selectFields] Fields [8]: "accession, chebi.id, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, name, lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:38:24.866][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, name, lipidmaps.structure.id"
biodb.TRACE[2022-01-25 06:38:24.868][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:38:24.869][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:38:24.871][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.872][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.873][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-25 06:38:24.875][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-25 06:38:24.876][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.877][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.879][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:38:24.880][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:38:24.882][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.883][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.884][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:38:24.886][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:38:24.887][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.889][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.890][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:38:24.891][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:38:24.893][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.894][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.895][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-25 06:38:24.897][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-25 06:38:24.898][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.900][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.901][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:38:24.903][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:38:24.904][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.906][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.907][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:38:24.909][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:38:24.910][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.911][ef$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.913][private$organizeFieldsByGroups] Groups [2]: "c("accession", "chebi.id", "ncbi.pubchem.comp.id", "comp.iupac.name.syst", "monoisotopic.mass", "formula", "name", "lipidmaps.structure.id"), list()"
biodb.TRACE[2022-01-25 06:38:24.914][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:38:24.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:38:24.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.953][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:38:24.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:38:24.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.960][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-25 06:38:24.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-25 06:38:24.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.967][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-25 06:38:24.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-25 06:38:24.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.973][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-25 06:38:24.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-25 06:38:24.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.978][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-25 06:38:24.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-25 06:38:24.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.984][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:38:24.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:38:24.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.989][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:38:24.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:38:24.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:24.995][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:38:24.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-25 06:38:24.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:24.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:25.000][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:38:25.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:38:25.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:25.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:25.005][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:38:25.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:38:25.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:25.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:25.011][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:38:25.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-25 06:38:25.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:25.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:25.016][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:38:25.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:38:25.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:25.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:25.022][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:38:25.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:38:25.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:25.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:25.028][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:38:25.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-25 06:38:25.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:25.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:25.034][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-25 06:38:25.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-25 06:38:25.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:25.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:25.040][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-25 06:38:25.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-25 06:38:25.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:25.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:25.045][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-25 06:38:25.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-25 06:38:25.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:25.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:25.051][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:38:25.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:38:25.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:25.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:25.057][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:38:25.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:38:25.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:25.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:25.062][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-25 06:38:25.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-25 06:38:25.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:25.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:25.068][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:38:25.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:38:25.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:25.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:25.073][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:38:25.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:38:25.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:25.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:25.079][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:38:25.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-25 06:38:25.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-25 06:38:25.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-25 06:38:25.091][private$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[2022-01-25 06:38:25.092][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.DEBUG[2022-01-25 06:38:25.094][conn$getBiodb()$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.INFO [2022-01-25 06:38:25.099][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2022-01-25 06:38:25.101][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector lipidmaps.structure from the request scheduler
biodb.INFO [2022-01-25 06:38:25.102][self$deleteConn] Connector "lipidmaps.structure" deleted.
biodb.DEBUG[2022-01-25 06:38:25.104][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-01-25 06:38:25.105][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-25 06:38:25.106][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-25 06:38:25.108][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-25 06:38:25.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-25 06:38:25.111][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-01-25 06:38:25.112][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 169 ]
> 
> proc.time()
   user  system elapsed 
 19.240   1.648 122.951 

Example timings

biodbLipidmaps.Rcheck/biodbLipidmaps-Ex.timings

nameusersystemelapsed
LipidmapsStructureConn1.7430.1211.865
LipidmapsStructureEntry0.2960.0010.297