Back to Multiple platform build/check report for BioC 3.14
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This page was generated on 2022-01-21 13:04:54 -0500 (Fri, 21 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" 4079
machv2macOS 10.14.6 Mojavex86_644.1.2 (2021-11-01) -- "Bird Hippie" 4140
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: 2022-01-20 01:55:04 -0500 (Thu, 20 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: 2022-01-20 06:31:01 -0500 (Thu, 20 Jan 2022)
EndedAt: 2022-01-20 06:33:46 -0500 (Thu, 20 Jan 2022)
EllapsedTime: 165.3 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 [2022-01-20 06:31:40.592][biodb::testContext] 
biodb.INFO [2022-01-20 06:31:40.595][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-20 06:31:40.596][biodb::testContext] Test context - Generic tests
biodb.INFO [2022-01-20 06:31:40.597][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-20 06:31:40.598][biodb::testContext] 
biodb.INFO [2022-01-20 06:31:40.616][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.2.2.
biodb.DEBUG[2022-01-20 06:31:40.619][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.14-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2022-01-20 06:31:40.627][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-20 06:31:40.628][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-01-20 06:31:40.630][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-01-20 06:31:40.630][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:40.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:40.632][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:40.633][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-01-20 06:31:40.653][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-01-20 06:31:40.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:40.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:40.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:40.657][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-01-20 06:31:40.658][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-01-20 06:31:40.659][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:40.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:40.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:40.662][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-01-20 06:31:40.663][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-01-20 06:31:40.664][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-01-20 06:31:40.665][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:40.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:40.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:40.667][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-01-20 06:31:40.668][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-01-20 06:31:40.669][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-01-20 06:31:40.670][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:40.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:40.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:40.673][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-01-20 06:31:40.674][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-01-20 06:31:40.675][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:40.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:40.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:40.678][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-01-20 06:31:40.679][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-01-20 06:31:40.680][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-01-20 06:31:40.680][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:40.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:40.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:40.683][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-01-20 06:31:40.684][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-01-20 06:31:40.685][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:40.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:40.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:40.688][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-01-20 06:31:40.689][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-01-20 06:31:40.690][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-01-20 06:31:40.691][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:40.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:40.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:40.693][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-01-20 06:31:40.694][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-01-20 06:31:40.695][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-01-20 06:31:40.696][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-01-20 06:31:40.697][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-01-20 06:31:40.698][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-01-20 06:31:40.699][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:40.700][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:40.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:40.702][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-01-20 06:31:40.703][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-01-20 06:31:40.704][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:40.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:40.705][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:40.706][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-01-20 06:31:40.707][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-01-20 06:31:40.708][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:40.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:40.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:40.711][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-01-20 06:31:40.712][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-01-20 06:31:40.713][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:40.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:40.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:40.716][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-01-20 06:31:40.717][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-01-20 06:31:40.717][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:40.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:40.719][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:40.720][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-01-20 06:31:40.721][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-01-20 06:31:40.722][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:40.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:40.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:40.725][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-01-20 06:31:40.726][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-01-20 06:31:40.731][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2022-01-20 06:31:40.732][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:40.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:40.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:40.735][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-01-20 06:31:40.736][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-01-20 06:31:40.737][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-01-20 06:31:40.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:40.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:40.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:40.743][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-01-20 06:31:40.789][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:40.805][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2022-01-20 06:31:40.807][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:40.808][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 06:31:40.809][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:40.810][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 06:31:40.811][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:40.812][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 06:31:40.813][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-20 06:31:40.814][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 06:31:40.815][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:40.816][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-01-20 06:31:40.817][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 06:31:40.818][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:40.819][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:40.820][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-20 06:31:40.820][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 06:31:40.820][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-20 06:31:40.820][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-20 06:31:40.820][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-20 06:31:40.821][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 06:31:40.822][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:40.823][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:40.824][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 06:31:40.825][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:40.825][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:40.826][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 06:31:40.827][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:40.828][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 06:31:40.829][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 06:31:40.830][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:40.831][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:40.832][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-01-20 06:31:40.834][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:40.835][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-01-20 06:31:40.836][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:40.837][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 06:31:40.838][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:40.839][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 06:31:40.840][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:40.841][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 06:31:40.842][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-20 06:31:40.843][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 06:31:40.844][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:40.845][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-01-20 06:31:40.846][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 06:31:40.847][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:40.848][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:40.850][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-20 06:31:40.850][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 06:31:40.850][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-20 06:31:40.850][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-20 06:31:40.850][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-20 06:31:40.851][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 06:31:40.852][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:40.852][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:40.853][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 06:31:40.854][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:40.855][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:40.856][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 06:31:40.857][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:40.858][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 06:31:40.859][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 06:31:40.860][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:40.861][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:40.862][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-01-20 06:31:40.863][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:40.864][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2022-01-20 06:31:40.865][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:40.866][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 06:31:40.867][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:40.868][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 06:31:40.869][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:40.870][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 06:31:40.871][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-20 06:31:40.872][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 06:31:40.873][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:40.874][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-01-20 06:31:40.875][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 06:31:40.876][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:40.877][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:40.878][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:40.879][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 06:31:40.880][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:40.881][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:40.882][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 06:31:40.882][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:40.883][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:40.884][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 06:31:40.885][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:40.886][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 06:31:40.887][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 06:31:40.888][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:40.889][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:40.890][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-01-20 06:31:40.892][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:40.893][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-01-20 06:31:40.894][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:40.894][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 06:31:40.895][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:40.896][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 06:31:40.897][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:40.898][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 06:31:40.899][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-20 06:31:40.900][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 06:31:40.901][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:40.902][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-01-20 06:31:40.903][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 06:31:40.904][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:40.904][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:40.905][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:40.906][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 06:31:40.907][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:40.908][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:40.909][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 06:31:40.910][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:40.910][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:40.911][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 06:31:40.912][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:40.913][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 06:31:40.914][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 06:31:40.915][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:40.916][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:40.920][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-20 06:31:40.921][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:40.922][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[2022-01-20 06:31:40.923][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:40.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:40.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:40.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:40.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:40.927][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:40.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:40.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:40.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:40.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:40.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:40.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:40.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:40.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:40.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:40.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:40.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:40.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:40.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:40.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:40.939][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:40.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:40.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:40.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:40.942][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:40.943][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:40.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:40.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:40.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:40.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:40.947][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:40.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:40.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:40.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:40.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:40.951][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:40.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:40.953][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:40.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:40.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:40.955][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:40.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:40.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:40.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:40.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:40.959][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:40.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:40.961][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:40.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:40.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:40.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:40.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:40.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:40.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:40.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:40.967][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:40.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:40.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:40.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:40.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:40.971][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:40.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:40.973][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:40.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:40.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:40.975][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:40.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:40.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:40.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:40.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:40.979][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:40.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:40.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:40.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:40.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:40.984][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:40.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:40.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:40.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:40.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:40.988][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:40.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:40.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:40.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:40.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:40.992][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-01-20 06:31:40.997][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-01-20 06:31:40.998][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-01-20 06:31:41.000][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-01-20 06:31:41.001][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-01-20 06:31:41.002][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-01-20 06:31:41.004][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-01-20 06:31:41.005][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-01-20 06:31:41.006][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-01-20 06:31:41.007][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-01-20 06:31:41.009][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-20 06:31:41.010][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-01-20 06:31:41.011][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-01-20 06:31:41.012][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-01-20 06:31:41.014][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-01-20 06:31:41.015][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-20 06:31:41.016][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-01-20 06:31:41.017][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-01-20 06:31:41.019][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-01-20 06:31:41.020][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-01-20 06:31:41.021][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-01-20 06:31:41.022][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-01-20 06:31:41.024][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-01-20 06:31:41.033][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-01-20 06:31:41.034][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-01-20 06:31:41.036][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-01-20 06:31:41.037][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-01-20 06:31:41.039][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-01-20 06:31:41.040][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-01-20 06:31:41.042][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-01-20 06:31:41.043][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-01-20 06:31:41.044][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-01-20 06:31:41.046][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-01-20 06:31:41.047][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-01-20 06:31:41.048][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-01-20 06:31:41.050][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-01-20 06:31:41.051][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-01-20 06:31:41.052][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-01-20 06:31:41.054][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-01-20 06:31:41.055][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-01-20 06:31:41.057][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-01-20 06:31:41.058][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-01-20 06:31:41.060][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-01-20 06:31:41.061][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-01-20 06:31:41.062][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-01-20 06:31:41.064][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-01-20 06:31:41.065][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-01-20 06:31:41.067][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-01-20 06:31:41.068][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-01-20 06:31:41.070][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-01-20 06:31:41.071][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-01-20 06:31:41.073][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-01-20 06:31:41.074][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-01-20 06:31:41.075][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-01-20 06:31:41.077][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-01-20 06:31:41.078][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-01-20 06:31:41.080][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-01-20 06:31:41.081][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-01-20 06:31:41.083][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-01-20 06:31:41.084][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-01-20 06:31:41.085][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-01-20 06:31:41.087][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-01-20 06:31:41.088][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-01-20 06:31:41.090][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-01-20 06:31:41.091][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-01-20 06:31:41.092][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-01-20 06:31:41.094][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-01-20 06:31:41.095][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-01-20 06:31:41.097][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-01-20 06:31:41.098][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-01-20 06:31:41.099][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-01-20 06:31:41.101][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-01-20 06:31:41.102][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-01-20 06:31:41.103][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-01-20 06:31:41.104][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-01-20 06:31:41.106][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-01-20 06:31:41.107][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-01-20 06:31:41.108][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-01-20 06:31:41.110][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-01-20 06:31:41.111][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-01-20 06:31:41.112][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-01-20 06:31:41.113][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-01-20 06:31:41.115][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-01-20 06:31:41.121][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-01-20 06:31:41.122][initialize] This is biodb version 1.2.2.
biodb.DEBUG[2022-01-20 06:31:41.126][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-20 06:31:41.127][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:41.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:41.128][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:41.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:41.134][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:41.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:41.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:41.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:41.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:41.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:41.139][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[2022-01-20 06:31:41.140][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:41.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:41.141][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:41.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:41.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:41.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:41.145][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[2022-01-20 06:31:41.145][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:41.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:41.147][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:41.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:41.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:41.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:41.150][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[2022-01-20 06:31:41.151][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:41.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:41.153][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:41.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:41.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:41.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:41.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:41.157][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:41.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:41.159][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:41.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:41.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:41.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:41.162][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:41.163][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:41.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:41.164][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:41.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:41.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:41.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:41.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:41.168][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:41.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:41.170][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:41.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:41.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:41.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:41.173][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[2022-01-20 06:31:41.174][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:41.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:41.175][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:41.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:41.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:41.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:41.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:41.179][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:41.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:41.181][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:41.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:41.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:41.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:41.184][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[2022-01-20 06:31:41.185][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:41.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:41.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:41.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:41.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:41.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:41.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:41.191][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:41.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:41.192][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:41.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:41.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:41.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:41.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:41.196][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:41.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:41.198][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:41.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:41.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:41.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:41.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:41.202][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:41.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:41.204][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:41.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:41.205][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:41.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:41.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:41.208][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:41.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:41.209][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:41.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:41.211][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:41.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:41.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:41.213][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:41.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:41.215][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:41.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:41.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:41.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:41.218][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:41.219][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:41.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:41.220][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:41.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:41.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:41.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:41.224][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:41.225][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:31:41.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:41.226][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:41.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:41.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:41.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:41.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:31:41.231][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.14-bioc/R/library/biodbLipidmaps/definitions.yml".
biodb.DEBUG[2022-01-20 06:31:41.240][self$getDbsInfo()$define] Define connector lipidmaps.structure.
biodb.DEBUG[2022-01-20 06:31:41.242][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:41.244][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2022-01-20 06:31:41.244][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:41.245][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 06:31:41.246][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:41.247][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 06:31:41.248][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:41.249][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 06:31:41.250][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-20 06:31:41.251][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 06:31:41.252][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:41.253][self$setPropertyValue] Setting property "name" to "LIPID MAPS Structure".
biodb.DEBUG[2022-01-20 06:31:41.254][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 06:31:41.255][self$setPropertyValue] Setting property "parsing.expr" to "LM_ID".
biodb.DEBUG[2022-01-20 06:31:41.255][self$setPropertyValue] Setting property "parsing.expr" to "CHEBI_ID".
biodb.DEBUG[2022-01-20 06:31:41.255][self$setPropertyValue] Setting property "parsing.expr" to "HMDBID".
biodb.DEBUG[2022-01-20 06:31:41.255][self$setPropertyValue] Setting property "parsing.expr" to "KEGG_ID".
biodb.DEBUG[2022-01-20 06:31:41.255][self$setPropertyValue] Setting property "parsing.expr" to "PUBCHEM_COMPOUND_ID".
biodb.DEBUG[2022-01-20 06:31:41.255][self$setPropertyValue] Setting property "parsing.expr" to "SYSTEMATIC_NAME".
biodb.DEBUG[2022-01-20 06:31:41.255][self$setPropertyValue] Setting property "parsing.expr" to "MASS".
biodb.DEBUG[2022-01-20 06:31:41.255][self$setPropertyValue] Setting property "parsing.expr" to "FORMULA".
biodb.DEBUG[2022-01-20 06:31:41.255][self$setPropertyValue] Setting property "parsing.expr" to "COMMON_NAME".
biodb.DEBUG[2022-01-20 06:31:41.256][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2022-01-20 06:31:41.257][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-20 06:31:41.257][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 06:31:41.258][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 06:31:41.259][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:41.260][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:41.261][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 06:31:41.262][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:31:41.270][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:31:41.271][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 06:31:41.272][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/data/".
biodb.DEBUG[2022-01-20 06:31:41.272][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/databases/lmsd/".
biodb.DEBUG[2022-01-20 06:31:41.273][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 06:31:41.274][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 06:31:41.275][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2022-01-20 06:31:41.276][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:31:41.282][self$getEntryFields()$define] Define field lipidmaps.structure.id.
biodb.DEBUG[2022-01-20 06:31:41.284][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-20 06:31:41.311][initialize] Initialize connector lipidmaps.structure.
biodb.DEBUG[2022-01-20 06:31:41.313][initialize] Register connector lipidmaps.structure with the request scheduler
biodb.DEBUG[2022-01-20 06:31:41.318][private$bdb$getRequestScheduler()$re ...] Register connector lipidmaps.structure.
biodb.DEBUG[2022-01-20 06:31:41.323][private$addConnectorRules] Create new rule for URL "www.lipidmaps.org" of connector "lipidmaps.structure".
biodb.DEBUG[2022-01-20 06:31:41.328][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2022-01-20 06:31:41.330][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2022-01-20 06:31:41.331][rule$addConnector] Connector "lipidmaps.structure" is already listed in rule "www.lipidmaps.org".
biodb.DEBUG[2022-01-20 06:31:41.332][biodb$getFactory()$createConn] Creating new connector lipidmaps.structure for database class lipidmaps.structure .
biodb.INFO [2022-01-20 06:31:41.355][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:41.357][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2022-01-20 06:31:41.358][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:31:41.359][biodb::testThat] 
biodb.TRACE[2022-01-20 06:31:41.363][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[2022-01-20 06:31:41.369][biodb$getFactory()$createEntryFromCo ...] Creating LIPID MAPS Structure entries from 1 content(s).
biodb.DEBUG[2022-01-20 06:31:41.370][biodb$getFactory()$createEntryFromCo ...] Parsing 1 LIPID MAPS Structure entries.
biodb.DEBUG[2022-01-20 06:31:41.380][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:31:41.381][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:41.382][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:41.384][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:41.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:41.385][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:41.386][FUN] Functions in observer BiodbConfig: [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[2022-01-20 06:31:41.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:41.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:41.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.405][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:41.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:41.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.425][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:31:41.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:31:41.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.429][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:41.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:41.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.432][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:41.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:41.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.436][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:41.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:41.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.464][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:41.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:41.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.472][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:41.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:41.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.477][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:41.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:41.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.485][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-01-20 06:31:41.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:41.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.489][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-01-20 06:31:41.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:41.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.497][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:41.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:41.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.501][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:41.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:41.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.510][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:41.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:41.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.514][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:41.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:41.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.522][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-01-20 06:31:41.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:41.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.526][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2022-01-20 06:31:41.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:41.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.530][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:41.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:41.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.534][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:41.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:41.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.537][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-01-20 06:31:41.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:41.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.576][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:41.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:41.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.581][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:41.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:41.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.618][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:41.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:41.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.622][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:41.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:41.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.626][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:41.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:41.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.635][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:31:41.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:31:41.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.639][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:31:41.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:31:41.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.643][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:41.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:41.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.647][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:31:41.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:31:41.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.651][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:41.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:41.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:41.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:41.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.658][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:41.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:41.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.667][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:41.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:41.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.671][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:41.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:41.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.674][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:41.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:41.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:41.678][biodb$getFactory()$createEntryFromCo ...] Accession numbers: LMFA00000001.
biodb.TRACE[2022-01-20 06:31:41.685][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 06:31:41.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 06:31:41.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.689][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 06:31:41.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 06:31:41.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.693][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-20 06:31:41.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-20 06:31:41.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.697][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 06:31:41.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 06:31:41.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:41.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:41.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.782][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:31:41.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:31:41.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:41.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:41.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:41.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:41.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:41.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:41.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.803][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:41.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:41.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:41.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:41.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.811][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:41.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:41.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.854][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:31:41.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:31:41.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.859][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:31:41.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:31:41.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.865][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:31:41.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:31:41.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:41.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:41.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.884][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:41.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:41.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:41.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:41.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.895][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:41.897][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:41.898][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.899][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:41.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:41.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.914][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:41.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:41.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.919][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:41.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:41.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.925][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:41.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:41.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.930][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:41.932][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:41.933][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.934][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.935][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:41.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:41.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.944][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:41.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:41.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.949][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:41.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:41.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.953][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:41.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:41.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.957][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:41.958][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:41.959][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.960][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.961][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:41.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:41.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.971][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:41.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:41.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.976][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:41.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:41.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.980][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:41.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:41.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.984][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:41.986][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:41.987][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.988][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.989][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:41.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:41.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:41.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:41.999][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:42.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:42.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.003][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:42.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:42.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.007][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:42.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:42.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.012][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:42.013][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:42.014][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.015][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.016][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:42.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:42.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.026][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:42.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:42.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.030][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:42.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:42.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.034][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:42.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:42.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.039][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:42.040][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:42.041][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.042][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.043][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:42.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:42.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.052][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:42.053][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:42.054][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.055][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.058][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:42.059][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:42.060][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.061][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.064][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:42.065][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:42.066][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.067][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.070][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:42.071][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:42.072][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.073][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.076][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:42.078][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:42.078][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.079][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.083][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:42.084][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:42.085][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.086][ef$get] fields variable is a list.
biodb.INFO [2022-01-20 06:31:42.090][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:42.091][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2022-01-20 06:31:42.092][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:31:42.093][biodb::testThat] 
biodb.DEBUG[2022-01-20 06:31:42.115][private$loadEntries] Creating entries from ids [1]: "LMFA00000001".
biodb.DEBUG[2022-01-20 06:31:42.124][conn$getEntryContent] Get LIPID MAPS Structure entry content(s) for 1 id(s)...
biodb.TRACE[2022-01-20 06:31:42.128][cch$loadFileContent] Trying to load 1 files from cache: [1]: "LMFA00000001".
biodb.TRACE[2022-01-20 06:31:42.130][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-20 06:31:42.131][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA00000001.tsv".
biodb.DEBUG[2022-01-20 06:31:42.132][conn$getEntryContent] 1 LIPID MAPS Structure entry content(s) loaded from cache.
biodb.DEBUG[2022-01-20 06:31:42.167][self$createEntryFromContent] Creating LIPID MAPS Structure entries from 1 content(s).
biodb.DEBUG[2022-01-20 06:31:42.169][self$createEntryFromContent] Parsing 1 LIPID MAPS Structure entries.
biodb.DEBUG[2022-01-20 06:31:42.170][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:31:42.171][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:31:42.172][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:31:42.174][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:31:42.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:31:42.175][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:31:42.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 06:31:42.181][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:42.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:42.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:42.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:42.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:31:42.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:31:42.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.196][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:42.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:31:42.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.200][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:42.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:31:42.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.204][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:42.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:42.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.208][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:42.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:31:42.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.215][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:42.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:42.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.219][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:42.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:31:42.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.226][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-01-20 06:31:42.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:42.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.230][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-01-20 06:31:42.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:42.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.238][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:42.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:42.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.242][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:31:42.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:31:42.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.250][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:42.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:42.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.254][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:42.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:42.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.262][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-01-20 06:31:42.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:42.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.265][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2022-01-20 06:31:42.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:42.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.269][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:42.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:42.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.273][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:42.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:42.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.277][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-01-20 06:31:42.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:42.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.285][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:42.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:42.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.288][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:42.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:42.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.292][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:42.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:42.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.296][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:42.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:42.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.300][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:42.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:42.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.307][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:31:42.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:31:42.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.311][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:31:42.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:31:42.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.315][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:42.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:42.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.318][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:31:42.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:31:42.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.328][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:42.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:42.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.331][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:42.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:42.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:42.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:42.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.342][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:42.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:42.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.346][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:42.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:42.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:31:42.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:31:42.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:42.353][self$createEntryFromContent] Accession numbers: LMFA00000001.
biodb.TRACE[2022-01-20 06:31:42.354][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2022-01-20 06:31:42.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2022-01-20 06:31:42.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.358][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2022-01-20 06:31:42.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2022-01-20 06:31:42.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.361][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2022-01-20 06:31:42.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2022-01-20 06:31:42.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-01-20 06:31:42.369][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:42.370][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2022-01-20 06:31:42.370][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:31:42.371][biodb::testThat] 
biodb.TRACE[2022-01-20 06:31:42.374][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:42.375][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:42.376][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.377][ef$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:42.378][function(conn, opt)] Testing searchForEntries() with entry "LMFA00000001" and field "name".
biodb.TRACE[2022-01-20 06:31:42.398][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:42.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:42.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.402][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:42.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:42.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:42.406][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:42.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:42.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:42.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:42.411][function(conn, opt)] With value "2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride".
biodb.DEBUG[2022-01-20 06:31:42.440][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[2022-01-20 06:31:42.457][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:31:42.458][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:31:42.460][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl%20anhydride".
biodb.TRACE[2022-01-20 06:31:44.134][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl%20anhydride).
biodb.DEBUG[2022-01-20 06:31:44.803][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-01-20 06:31:44.818][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.content"
biodb.TRACE[2022-01-20 06:31:44.860][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.request"
biodb.DEBUG[2022-01-20 06:31:44.869][function(conn, opt)] With found IDs [1]: "LMFA00000001".
biodb.TRACE[2022-01-20 06:31:44.881][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:44.883][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:44.884][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:44.886][ef$get] fields variable is a list.
biodb.INFO [2022-01-20 06:31:44.889][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:44.890][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2022-01-20 06:31:44.892][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:31:44.893][biodb::testThat] 
biodb.TRACE[2022-01-20 06:31:44.914][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:44.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:44.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:44.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:44.921][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:44.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:44.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:44.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:44.927][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:44.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:44.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:44.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:45.123][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride".
biodb.DEBUG[2022-01-20 06:31:45.129][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-20 06:31:45.157][cch$loadFileContent] Trying to load 1 files from cache: [1]: "e8702bf6dc5a5afd048f747914fd7a6a".
biodb.TRACE[2022-01-20 06:31:45.159][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-20 06:31:45.161][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.content".
biodb.INFO [2022-01-20 06:31:45.171][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:45.172][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2022-01-20 06:31:45.173][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:31:45.174][biodb::testThat] 
biodb.TRACE[2022-01-20 06:31:45.211][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 06:31:45.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 06:31:45.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:45.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:45.216][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 06:31:45.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 06:31:45.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:45.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:45.220][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-20 06:31:45.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-20 06:31:45.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:45.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:45.224][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 06:31:45.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 06:31:45.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:45.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:45.274][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 06:31:45.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 06:31:45.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:45.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:45.279][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 06:31:45.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 06:31:45.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:45.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:45.283][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-20 06:31:45.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-20 06:31:45.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:45.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:45.287][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 06:31:45.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 06:31:45.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:45.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-01-20 06:31:45.294][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:45.295][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2022-01-20 06:31:45.296][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:31:45.297][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:45.302][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:45.303][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2022-01-20 06:31:45.304][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:31:45.305][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:45.310][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:45.311][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2022-01-20 06:31:45.312][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:31:45.313][biodb::testThat] 
biodb.DEBUG[2022-01-20 06:31:45.317][function(conn, opt)] Trying to download "https://www.lipidmaps.org/data?LMID=LMFA00000001".
biodb.DEBUG[2022-01-20 06:31:46.315][getUrlContent] Use RCurl for downloading content of URL https://www.lipidmaps.org/data?LMID=LMFA00000001.
biodb.INFO [2022-01-20 06:31:47.003][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:47.005][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2022-01-20 06:31:47.006][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:31:47.007][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:47.011][biodb::testThat] 
biodb.INFO [2022-01-20 06:31:47.012][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2022-01-20 06:31:47.013][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:31:47.014][biodb::testThat] 
biodb.TRACE[2022-01-20 06:31:47.022][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:47.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:47.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:47.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:47.026][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:47.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:47.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:47.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:47.031][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:31:47.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:31:47.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:47.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:47.119][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride".
biodb.DEBUG[2022-01-20 06:31:47.123][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-20 06:31:47.124][cch$loadFileContent] Trying to load 1 files from cache: [1]: "e8702bf6dc5a5afd048f747914fd7a6a".
biodb.TRACE[2022-01-20 06:31:47.126][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-20 06:31:47.127][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.content".
biodb.DEBUG[2022-01-20 06:31:47.145][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride".
biodb.DEBUG[2022-01-20 06:31:47.148][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-20 06:31:47.150][cch$loadFileContent] Trying to load 1 files from cache: [1]: "e8702bf6dc5a5afd048f747914fd7a6a".
biodb.TRACE[2022-01-20 06:31:47.151][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-20 06:31:47.153][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.content".
biodb.TRACE[2022-01-20 06:31:47.163][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:31:47.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:31:47.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:47.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:47.171][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 06:31:47.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 06:31:47.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:47.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:47.178][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:47.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:47.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:47.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:47.182][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:47.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:47.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:47.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:47.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:47.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:47.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:47.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:47.191][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:47.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:47.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:47.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:31:47.195][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:47.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:31:47.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:31:47.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:31:47.225][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=1e-06".
biodb.DEBUG[2022-01-20 06:31:47.248][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:31:47.250][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:31:47.266][private$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[2022-01-20 06:31:51.588][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[2022-01-20 06:32:01.657][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-01-20 06:32:01.663][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/304383a7dc8c451be84009e31d831359.content"
biodb.TRACE[2022-01-20 06:32:01.682][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/304383a7dc8c451be84009e31d831359.request"
biodb.DEBUG[2022-01-20 06:32:02.063][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.INFO [2022-01-20 06:32:02.066][self$getFolderPath] Create cache folder "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b" for "lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b".
biodb.DEBUG[2022-01-20 06:32:02.067][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:32:02.068][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:32:02.069][private$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[2022-01-20 06:32:02.684][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[2022-01-20 06:32:03.328][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-01-20 06:32:03.337][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/7f71825f1888a7b29e4b8407502d21e3.content"
biodb.TRACE[2022-01-20 06:32:03.349][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/7f71825f1888a7b29e4b8407502d21e3.request"
biodb.DEBUG[2022-01-20 06:32:03.402][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[2022-01-20 06:32:03.406][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:32:03.407][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:32:03.408][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl%20anhydride&ExactMass=626.491026&ExactMassOffSet=2e-06".
biodb.TRACE[2022-01-20 06:32:04.024][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl%20anhydride&ExactMass=626.491026&ExactMassOffSet=2e-06).
biodb.DEBUG[2022-01-20 06:32:04.704][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-01-20 06:32:04.712][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/fd41c675dd237f33cdaafcbb15058c54.content"
biodb.TRACE[2022-01-20 06:32:04.723][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/fd41c675dd237f33cdaafcbb15058c54.request"
biodb.TRACE[2022-01-20 06:32:04.739][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2022-01-20 06:32:04.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2022-01-20 06:32:04.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:04.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-01-20 06:32:04.750][biodb::testThat] 
biodb.INFO [2022-01-20 06:32:04.751][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2022-01-20 06:32:04.753][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:32:04.754][biodb::testThat] 
biodb.TRACE[2022-01-20 06:32:04.757][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:32:04.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:32:04.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:04.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:04.763][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 06:32:04.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 06:32:04.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:04.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:04.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:32:04.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:32:04.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:04.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:04.773][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:32:04.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:32:04.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:04.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:04.778][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:32:04.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:32:04.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:04.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:04.783][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:32:04.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:32:04.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:04.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:32:04.793][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:32:04.794][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:32:04.795][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:32:04.798][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:32:04.799][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:32:04.800][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:32:04.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:32:04.874][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.01".
biodb.INFO [2022-01-20 06:32:04.878][self$getFolderPath] Create cache folder "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b" for "lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b".
biodb.DEBUG[2022-01-20 06:32:04.879][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:32:04.880][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:32:04.882][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.01".
biodb.TRACE[2022-01-20 06:32:09.452][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.01).
biodb.DEBUG[2022-01-20 06:32:19.218][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-01-20 06:32:19.229][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f4acf835cb23946f08f684530aa686a3.content"
biodb.TRACE[2022-01-20 06:32:19.254][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f4acf835cb23946f08f684530aa686a3.request"
biodb.DEBUG[2022-01-20 06:32:19.563][private$loadEntries] Creating entries from ids [2]: "LMFA00000002, LMFA00000003".
biodb.DEBUG[2022-01-20 06:32:19.612][conn$getEntryContent] Get LIPID MAPS Structure entry content(s) for 2 id(s)...
biodb.TRACE[2022-01-20 06:32:19.614][cch$loadFileContent] Trying to load 2 files from cache: [2]: "LMFA00000002, LMFA00000003".
biodb.TRACE[2022-01-20 06:32:19.616][cch$loadFileContent] file.exist = [2]: "FALSE, FALSE".
biodb.TRACE[2022-01-20 06:32:19.617][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-20 06:32:19.618][conn$getEntryContent] 0 LIPID MAPS Structure entry content(s) loaded from cache.
biodb.DEBUG[2022-01-20 06:32:19.619][conn$getEntryContent] 2 entry content(s) need to be fetched from LIPID MAPS Structure database "https://www.lipidmaps.org/data/".
biodb.DEBUG[2022-01-20 06:32:19.620][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-20 06:32:19.621][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-20 06:32:19.635][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:32:19.636][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:32:19.637][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:32:19.639][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:32:19.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:32:19.641][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:32:19.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:32:19.643][scheduler$sendRequest] Getting content of get URL request "https://www.lipidmaps.org/databases/lmsd/LMFA00000002?format=tsv".
biodb.DEBUG[2022-01-20 06:32:19.646][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:32:19.646][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:32:19.648][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/LMFA00000002?format=tsv".
biodb.TRACE[2022-01-20 06:32:20.280][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/databases/lmsd/LMFA00000002?format=tsv).
biodb.DEBUG[2022-01-20 06:32:20.939][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-01-20 06:32:20.947][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/a989db4a318873c598872a885a94e78c.content"
biodb.TRACE[2022-01-20 06:32:20.959][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/a989db4a318873c598872a885a94e78c.request"
biodb.DEBUG[2022-01-20 06:32:20.965][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:32:20.966][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:32:20.966][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:32:20.968][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:32:20.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:32:20.970][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:32:20.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:32:20.972][scheduler$sendRequest] Getting content of get URL request "https://www.lipidmaps.org/databases/lmsd/LMFA00000003?format=tsv".
biodb.DEBUG[2022-01-20 06:32:20.974][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:32:20.975][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:32:20.976][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/LMFA00000003?format=tsv".
biodb.TRACE[2022-01-20 06:32:21.614][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/databases/lmsd/LMFA00000003?format=tsv).
biodb.DEBUG[2022-01-20 06:32:22.310][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-01-20 06:32:22.319][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f88961343869f5da5bc09cbcc0e6185e.content"
biodb.TRACE[2022-01-20 06:32:22.339][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f88961343869f5da5bc09cbcc0e6185e.request"
biodb.TRACE[2022-01-20 06:32:22.354][private$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[2022-01-20 06:32:22.358][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-20 06:32:22.370][self$createEntryFromContent] Creating LIPID MAPS Structure entries from 2 content(s).
biodb.DEBUG[2022-01-20 06:32:22.371][self$createEntryFromContent] Parsing 2 LIPID MAPS Structure entries.
biodb.DEBUG[2022-01-20 06:32:22.374][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:32:22.374][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:32:22.375][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:32:22.377][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:32:22.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:32:22.379][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:32:22.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 06:32:22.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:32:22.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:32:22.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:32:22.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:32:22.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.397][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:32:22.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:32:22.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.401][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:32:22.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:32:22.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.409][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:32:22.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:32:22.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.413][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:32:22.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:32:22.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.417][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:32:22.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:32:22.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.421][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:32:22.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:32:22.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.429][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:32:22.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:32:22.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.433][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:32:22.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:32:22.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.441][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-01-20 06:32:22.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:32:22.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.445][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-01-20 06:32:22.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:32:22.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.453][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:32:22.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:32:22.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.457][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:32:22.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:32:22.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.465][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:32:22.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:32:22.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.488][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:32:22.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:32:22.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.496][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-01-20 06:32:22.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:32:22.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.500][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2022-01-20 06:32:22.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:32:22.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.504][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:32:22.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:32:22.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.507][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:32:22.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:32:22.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.511][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-01-20 06:32:22.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:32:22.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.518][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.521][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:32:22.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:32:22.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.528][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:32:22.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:32:22.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:32:22.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:32:22.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:32:22.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:32:22.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:32:22.546][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:32:22.547][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:32:22.547][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:32:22.549][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:32:22.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:32:22.551][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:32:22.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 06:32:22.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:32:22.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:32:22.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:32:22.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:32:22.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.565][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:32:22.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:32:22.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.569][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:32:22.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:32:22.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.572][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:32:22.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:32:22.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.576][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:32:22.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:32:22.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.579][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:32:22.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:32:22.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.586][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:32:22.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:32:22.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.590][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:32:22.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:32:22.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.597][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-01-20 06:32:22.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:32:22.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.601][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-01-20 06:32:22.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:32:22.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.608][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:32:22.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:32:22.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.611][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:32:22.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:32:22.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.619][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:32:22.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:32:22.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.622][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:32:22.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:32:22.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.644][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-01-20 06:32:22.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:32:22.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.648][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2022-01-20 06:32:22.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:32:22.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.652][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:32:22.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:32:22.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.655][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:32:22.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:32:22.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.659][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-01-20 06:32:22.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:32:22.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.666][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.670][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.673][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:32:22.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:32:22.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.677][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:32:22.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:32:22.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.684][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:32:22.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:32:22.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.687][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:32:22.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:32:22.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.695][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:32:22.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:32:22.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:32:22.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:32:22.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.702][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:32:22.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:32:22.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.705][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:32:22.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:32:22.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.708][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:32:22.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:32:22.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.712][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:32:22.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:32:22.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:32:22.715][self$createEntryFromContent] Accession numbers: LMFA00000002, LMFA00000003.
biodb.DEBUG[2022-01-20 06:32:22.724][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2022-01-20 06:32:22.725][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:32:22.726][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:32:22.727][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:32:22.729][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:32:22.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:32:22.730][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:32:22.731][FUN] Functions in observer BiodbConfig: [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[2022-01-20 06:32:22.732][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.735][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.739][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:32:22.740][private$selectFields] 
biodb.TRACE[2022-01-20 06:32:22.741][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-20 06:32:22.741][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-20 06:32:22.742][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:32:22.743][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.744][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.745][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.745][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.746][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.747][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.748][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.749][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.750][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:32:22.751][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:32:22.751][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.752][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.753][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.754][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.755][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2022-01-20 06:32:22.756][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.759][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.763][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.784][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2022-01-20 06:32:22.786][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:32:22.786][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:32:22.787][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:32:22.789][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:32:22.790][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:32:22.790][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:32:22.791][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 06:32:22.792][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.796][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.799][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:32:22.800][private$selectFields] 
biodb.TRACE[2022-01-20 06:32:22.801][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-20 06:32:22.802][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-20 06:32:22.803][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:32:22.803][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.804][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.805][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.806][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.807][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.808][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.809][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.809][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.810][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:32:22.811][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:32:22.812][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.813][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.814][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.815][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.816][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2022-01-20 06:32:22.817][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.820][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.824][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.828][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2022-01-20 06:32:22.829][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:32:22.830][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:32:22.831][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:32:22.832][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:32:22.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:32:22.834][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:32:22.836][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 06:32:22.837][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.840][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.844][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:32:22.844][private$selectFields] 
biodb.TRACE[2022-01-20 06:32:22.845][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-20 06:32:22.846][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-20 06:32:22.847][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:32:22.848][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.849][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.850][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.850][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.851][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.852][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.853][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.854][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.855][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:32:22.856][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:32:22.856][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.857][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.858][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.859][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.860][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2022-01-20 06:32:22.861][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.864][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.867][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:22.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.871][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2022-01-20 06:32:22.872][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2022-01-20 06:32:22.873][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2022-01-20 06:32:22.879][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2022-01-20 06:32:22.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2022-01-20 06:32:22.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-01-20 06:32:22.884][biodb::testThat] 
biodb.INFO [2022-01-20 06:32:22.885][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2022-01-20 06:32:22.886][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:32:22.887][biodb::testThat] 
biodb.TRACE[2022-01-20 06:32:22.890][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:32:22.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:32:22.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.893][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 06:32:22.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 06:32:22.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.897][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:32:22.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:32:22.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.900][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:32:22.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:32:22.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.904][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:32:22.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:32:22.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:22.907][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:32:22.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:32:22.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:22.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:32:22.967][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:32:22.968][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:32:22.969][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:32:22.971][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:32:22.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:32:22.972][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:32:22.973][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[2022-01-20 06:32:23.033][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[2022-01-20 06:32:23.036][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:32:23.037][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:32:23.039][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.009397365375".
biodb.TRACE[2022-01-20 06:32:27.613][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.009397365375).
biodb.DEBUG[2022-01-20 06:32:37.428][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-01-20 06:32:37.444][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/5652f5994fce967a05a065a71bac3ed6.content"
biodb.TRACE[2022-01-20 06:32:37.469][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/5652f5994fce967a05a065a71bac3ed6.request"
biodb.DEBUG[2022-01-20 06:32:37.795][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2022-01-20 06:32:37.820][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:32:37.821][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:32:37.822][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:32:37.824][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:32:37.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:32:37.826][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:32:37.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 06:32:37.840][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:37.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:37.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:37.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:37.845][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:37.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:37.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:37.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:37.898][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:32:37.899][private$selectFields] 
biodb.TRACE[2022-01-20 06:32:37.900][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-20 06:32:37.901][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-20 06:32:37.902][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:32:37.903][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:37.904][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:37.905][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:37.906][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:37.907][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:37.908][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:37.909][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:37.910][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:37.911][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:32:37.921][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:32:37.922][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:37.923][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:37.924][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:37.925][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:37.926][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2022-01-20 06:32:37.927][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:37.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:37.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:37.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:37.931][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:37.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:37.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:37.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:37.935][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:37.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:37.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:37.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:37.939][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2022-01-20 06:32:37.940][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:32:37.941][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:32:37.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:32:37.944][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:32:37.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:32:37.945][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:32:37.946][FUN] Functions in observer BiodbConfig: [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[2022-01-20 06:32:37.948][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:37.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:37.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:37.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:37.952][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:37.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:37.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:37.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:37.955][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:32:37.956][private$selectFields] 
biodb.TRACE[2022-01-20 06:32:37.957][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-20 06:32:37.958][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-20 06:32:37.961][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:32:37.962][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:37.963][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:37.964][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:37.965][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:37.966][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:37.967][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:37.968][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:37.968][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:37.969][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:32:37.970][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:32:37.971][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:37.972][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:37.973][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:37.974][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:37.975][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2022-01-20 06:32:37.976][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:37.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:37.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:37.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:37.980][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:37.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:37.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:37.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:37.984][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:37.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:37.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:37.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:37.988][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2022-01-20 06:32:37.989][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:32:37.990][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:32:37.991][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:32:37.992][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:32:37.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:32:37.994][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:32:37.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 06:32:37.996][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:37.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:37.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:37.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.000][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.005][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:32:38.006][private$selectFields] 
biodb.TRACE[2022-01-20 06:32:38.006][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-20 06:32:38.007][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-20 06:32:38.008][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:32:38.009][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.010][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.011][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.012][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.013][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.014][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.015][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.016][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.017][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:32:38.018][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:32:38.019][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.020][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.021][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.021][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.022][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2022-01-20 06:32:38.023][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.027][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.031][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.035][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2022-01-20 06:32:38.036][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2022-01-20 06:32:38.037][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2022-01-20 06:32:38.055][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2022-01-20 06:32:38.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2022-01-20 06:32:38.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-01-20 06:32:38.060][biodb::testThat] 
biodb.INFO [2022-01-20 06:32:38.061][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2022-01-20 06:32:38.062][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:32:38.063][biodb::testThat] 
biodb.TRACE[2022-01-20 06:32:38.066][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2022-01-20 06:32:38.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2022-01-20 06:32:38.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.069][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2022-01-20 06:32:38.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2022-01-20 06:32:38.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.073][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:32:38.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:32:38.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.077][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:32:38.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:32:38.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.080][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:32:38.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:32:38.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.084][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:32:38.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:32:38.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:32:38.091][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:32:38.091][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:32:38.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:32:38.094][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:32:38.095][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:32:38.095][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:32:38.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:32:38.161][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&ExactMass=626.491025&ExactMassOffSet=0.01".
biodb.DEBUG[2022-01-20 06:32:38.164][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-20 06:32:38.165][cch$loadFileContent] Trying to load 1 files from cache: [1]: "f4acf835cb23946f08f684530aa686a3".
biodb.TRACE[2022-01-20 06:32:38.167][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-20 06:32:38.212][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f4acf835cb23946f08f684530aa686a3.content".
biodb.DEBUG[2022-01-20 06:32:38.794][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2022-01-20 06:32:38.797][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:32:38.798][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:32:38.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:32:38.801][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:32:38.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:32:38.803][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:32:38.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 06:32:38.805][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.810][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.814][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:32:38.837][private$selectFields] 
biodb.TRACE[2022-01-20 06:32:38.839][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-20 06:32:38.840][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-20 06:32:38.841][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:32:38.842][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.843][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.844][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.845][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.846][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.847][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.848][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.849][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.850][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:32:38.851][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:32:38.852][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.853][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.854][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.855][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.856][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2022-01-20 06:32:38.857][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.861][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.865][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.869][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2022-01-20 06:32:38.870][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:32:38.871][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:32:38.872][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:32:38.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:32:38.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:32:38.876][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:32:38.876][FUN] Functions in observer BiodbConfig: [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[2022-01-20 06:32:38.878][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.882][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.885][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:32:38.886][private$selectFields] 
biodb.TRACE[2022-01-20 06:32:38.887][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-20 06:32:38.888][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-20 06:32:38.889][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:32:38.890][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.891][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.892][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.893][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.894][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.895][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.896][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.897][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.898][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:32:38.899][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:32:38.899][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.901][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.901][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.902][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.903][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2022-01-20 06:32:38.904][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.909][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.913][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.917][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2022-01-20 06:32:38.918][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:32:38.919][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:32:38.920][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:32:38.922][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:32:38.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:32:38.924][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:32:38.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 06:32:38.926][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.930][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.934][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:32:38.935][private$selectFields] 
biodb.TRACE[2022-01-20 06:32:38.936][private$selectFields] Fields is null: FALSE
biodb.TRACE[2022-01-20 06:32:38.937][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-20 06:32:38.938][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:32:38.939][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.940][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.941][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.941][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.942][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.944][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.944][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.945][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.946][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:32:38.947][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:32:38.948][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.949][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.950][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.951][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.952][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2022-01-20 06:32:38.953][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.958][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.962][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:38.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:38.966][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2022-01-20 06:32:38.967][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2022-01-20 06:32:38.968][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2022-01-20 06:32:38.980][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2022-01-20 06:32:38.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2022-01-20 06:32:38.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:38.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2022-01-20 06:32:38.986][biodb::testThat] 
biodb.INFO [2022-01-20 06:32:38.987][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2022-01-20 06:32:38.987][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:32:39.029][biodb::testThat] 
biodb.DEBUG[2022-01-20 06:32:39.031][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2022-01-20 06:32:39.032][conn$getEntryContent] Get LIPID MAPS Structure entry content(s) for 1 id(s)...
biodb.TRACE[2022-01-20 06:32:39.034][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2022-01-20 06:32:39.035][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2022-01-20 06:32:39.036][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-20 06:32:39.037][conn$getEntryContent] 0 LIPID MAPS Structure entry content(s) loaded from cache.
biodb.DEBUG[2022-01-20 06:32:39.038][conn$getEntryContent] 1 entry content(s) need to be fetched from LIPID MAPS Structure database "https://www.lipidmaps.org/data/".
biodb.DEBUG[2022-01-20 06:32:39.039][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-20 06:32:39.040][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-20 06:32:39.054][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:32:39.055][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:32:39.056][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:32:39.058][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:32:39.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:32:39.059][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:32:39.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:32:39.061][scheduler$sendRequest] Getting content of get URL request "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv".
biodb.DEBUG[2022-01-20 06:32:39.064][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:32:39.065][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:32:39.066][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv".
biodb.TRACE[2022-01-20 06:32:39.643][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv does not exist.
biodb.TRACE[2022-01-20 06:32:39.645][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-20 06:32:39.646][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-01-20 06:32:39.648][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv).
biodb.INFO [2022-01-20 06:32:40.432][private$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[2022-01-20 06:32:40.434][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:32:40.435][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:32:40.437][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv".
biodb.TRACE[2022-01-20 06:32:41.054][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv does not exist.
biodb.TRACE[2022-01-20 06:32:41.056][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-20 06:32:41.058][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-01-20 06:32:41.061][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv).
biodb.INFO [2022-01-20 06:32:41.795][private$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[2022-01-20 06:32:41.797][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:32:41.799][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:32:41.802][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv".
biodb.TRACE[2022-01-20 06:32:42.431][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv does not exist.
biodb.TRACE[2022-01-20 06:32:42.433][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-20 06:32:42.435][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-01-20 06:32:42.467][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv).
biodb.INFO [2022-01-20 06:32:43.201][private$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[2022-01-20 06:32:43.203][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:32:43.205][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:32:43.207][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv".
biodb.TRACE[2022-01-20 06:32:43.836][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv does not exist.
biodb.TRACE[2022-01-20 06:32:43.838][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-20 06:32:43.841][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-01-20 06:32:43.843][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv).
biodb.INFO [2022-01-20 06:32:44.677][private$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[2022-01-20 06:32:44.679][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:32:44.681][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:32:44.683][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv".
biodb.TRACE[2022-01-20 06:32:45.300][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv does not exist.
biodb.TRACE[2022-01-20 06:32:45.303][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-20 06:32:45.305][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-01-20 06:32:45.308][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv).
biodb.INFO [2022-01-20 06:32:46.090][private$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[2022-01-20 06:32:46.092][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:32:46.094][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:32:46.096][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv".
biodb.TRACE[2022-01-20 06:32:46.714][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv does not exist.
biodb.TRACE[2022-01-20 06:32:46.716][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-20 06:32:46.718][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-01-20 06:32:46.720][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv).
biodb.INFO [2022-01-20 06:32:47.447][private$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[2022-01-20 06:32:47.449][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:32:47.451][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:32:47.452][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv".
biodb.TRACE[2022-01-20 06:32:48.060][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv does not exist.
biodb.TRACE[2022-01-20 06:32:48.063][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-20 06:32:48.065][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-01-20 06:32:48.068][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv).
biodb.INFO [2022-01-20 06:32:48.833][private$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[2022-01-20 06:32:48.836][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:32:48.839][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:32:48.843][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv".
biodb.TRACE[2022-01-20 06:32:49.490][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv does not exist.
biodb.TRACE[2022-01-20 06:32:49.493][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-20 06:32:49.495][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-01-20 06:32:49.498][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv).
biodb.INFO [2022-01-20 06:32:50.242][private$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[2022-01-20 06:32:50.245][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:32:50.247][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:32:50.251][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv".
biodb.TRACE[2022-01-20 06:32:50.880][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv does not exist.
biodb.TRACE[2022-01-20 06:32:50.883][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-20 06:32:50.886][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-01-20 06:32:50.888][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv).
biodb.INFO [2022-01-20 06:32:51.638][private$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[2022-01-20 06:32:51.641][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:32:51.643][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:32:51.646][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv".
biodb.TRACE[2022-01-20 06:32:52.319][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv does not exist.
biodb.TRACE[2022-01-20 06:32:52.322][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-20 06:32:52.325][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-01-20 06:32:52.328][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGA?format=tsv).
biodb.INFO [2022-01-20 06:32:53.073][private$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[2022-01-20 06:32:53.096][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/WRONGA.tsv"
biodb.DEBUG[2022-01-20 06:32:53.107][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-20 06:32:53.127][self$createEntryFromContent] Creating LIPID MAPS Structure entries from 1 content(s).
biodb.DEBUG[2022-01-20 06:32:53.131][self$createEntryFromContent] Parsing 1 LIPID MAPS Structure entries.
biodb.DEBUG[2022-01-20 06:32:53.134][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:32:53.136][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:32:53.138][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:32:53.142][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:32:53.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:32:53.146][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:32:53.147][FUN] Functions in observer BiodbConfig: [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[2022-01-20 06:32:53.151][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:53.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:53.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:53.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:53.159][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:53.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:32:53.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:53.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:53.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:32:53.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:32:53.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:53.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:53.170][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:32:53.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:32:53.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:53.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:53.174][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:32:53.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:32:53.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:53.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:53.179][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:32:53.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:32:53.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:53.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:53.184][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:32:53.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:32:53.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:53.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:32:53.189][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:32:53.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:32:53.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:32:53.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:32:53.194][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2022-01-20 06:32:53.195][self$createEntryFromContent] Found %d entry/ies without an accession number. Set it/them to NULL.1
biodb.INFO [2022-01-20 06:32:53.202][biodb::testThat] 
biodb.INFO [2022-01-20 06:32:53.204][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2022-01-20 06:32:53.205][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:32:53.206][biodb::testThat] 
biodb.DEBUG[2022-01-20 06:32:53.216][function(conn, opt)] IDS: [4]: "WRONGB, LMFA00000001, LMFA00000002, LMFA08040013"
biodb.DEBUG[2022-01-20 06:32:53.218][private$loadEntries] Creating entries from ids [2]: "WRONGB, LMFA08040013".
biodb.DEBUG[2022-01-20 06:32:53.219][conn$getEntryContent] Get LIPID MAPS Structure entry content(s) for 2 id(s)...
biodb.TRACE[2022-01-20 06:32:53.222][cch$loadFileContent] Trying to load 2 files from cache: [2]: "WRONGB, LMFA08040013".
biodb.TRACE[2022-01-20 06:32:53.223][cch$loadFileContent] file.exist = [2]: "FALSE, FALSE".
biodb.TRACE[2022-01-20 06:32:53.225][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2022-01-20 06:32:53.226][conn$getEntryContent] 0 LIPID MAPS Structure entry content(s) loaded from cache.
biodb.DEBUG[2022-01-20 06:32:53.227][conn$getEntryContent] 2 entry content(s) need to be fetched from LIPID MAPS Structure database "https://www.lipidmaps.org/data/".
biodb.DEBUG[2022-01-20 06:32:53.229][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-20 06:32:53.230][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-20 06:32:53.235][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:32:53.236][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:32:53.237][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:32:53.239][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:32:53.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:32:53.241][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:32:53.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:32:53.244][scheduler$sendRequest] Getting content of get URL request "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv".
biodb.DEBUG[2022-01-20 06:32:53.248][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:32:53.249][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:32:53.251][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv".
biodb.TRACE[2022-01-20 06:32:53.888][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv does not exist.
biodb.TRACE[2022-01-20 06:32:53.891][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-20 06:32:53.894][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[2022-01-20 06:32:53.897][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv).
biodb.INFO [2022-01-20 06:32:54.648][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-01-20 06:32:54.651][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:32:54.653][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:32:54.656][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv".
biodb.TRACE[2022-01-20 06:32:55.281][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv does not exist.
biodb.TRACE[2022-01-20 06:32:55.283][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-20 06:32:55.286][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[2022-01-20 06:32:55.288][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv).
biodb.INFO [2022-01-20 06:32:56.038][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-01-20 06:32:56.041][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:32:56.044][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:32:56.047][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv".
biodb.TRACE[2022-01-20 06:32:56.674][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv does not exist.
biodb.TRACE[2022-01-20 06:32:56.677][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-20 06:32:56.680][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[2022-01-20 06:32:56.683][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv).
biodb.INFO [2022-01-20 06:32:57.473][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-01-20 06:32:57.475][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:32:57.477][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:32:57.479][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv".
biodb.TRACE[2022-01-20 06:32:58.098][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv does not exist.
biodb.TRACE[2022-01-20 06:32:58.101][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-20 06:32:58.128][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[2022-01-20 06:32:58.147][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv).
biodb.INFO [2022-01-20 06:32:58.889][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-01-20 06:32:58.891][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:32:58.893][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:32:58.896][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv".
biodb.TRACE[2022-01-20 06:32:59.524][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv does not exist.
biodb.TRACE[2022-01-20 06:32:59.528][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-20 06:32:59.531][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[2022-01-20 06:32:59.534][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv).
biodb.INFO [2022-01-20 06:33:00.276][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-01-20 06:33:00.278][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:33:00.280][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:33:00.283][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv".
biodb.TRACE[2022-01-20 06:33:00.919][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv does not exist.
biodb.TRACE[2022-01-20 06:33:00.922][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-20 06:33:00.925][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[2022-01-20 06:33:00.927][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv).
biodb.INFO [2022-01-20 06:33:01.677][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-01-20 06:33:01.679][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:33:01.682][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:33:01.685][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv".
biodb.TRACE[2022-01-20 06:33:02.324][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv does not exist.
biodb.TRACE[2022-01-20 06:33:02.327][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-20 06:33:02.330][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[2022-01-20 06:33:02.331][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv).
biodb.INFO [2022-01-20 06:33:03.184][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-01-20 06:33:03.190][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:33:03.193][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:33:03.197][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv".
biodb.TRACE[2022-01-20 06:33:03.830][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv does not exist.
biodb.TRACE[2022-01-20 06:33:03.832][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-20 06:33:03.834][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[2022-01-20 06:33:03.836][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv).
biodb.INFO [2022-01-20 06:33:04.570][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-01-20 06:33:04.572][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:33:04.574][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:33:04.576][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv".
biodb.TRACE[2022-01-20 06:33:05.198][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv does not exist.
biodb.TRACE[2022-01-20 06:33:05.200][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-20 06:33:05.202][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[2022-01-20 06:33:05.205][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv).
biodb.INFO [2022-01-20 06:33:06.041][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-01-20 06:33:06.043][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:33:06.045][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:33:06.047][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv".
biodb.TRACE[2022-01-20 06:33:06.669][doesRCurlRequestUrlExist] According to RCurl, URL https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv does not exist.
biodb.TRACE[2022-01-20 06:33:06.671][getUrlRequestResult] Using base::url() for sending request.
biodb.DEBUG[2022-01-20 06:33:06.674][getUrlRequestResult] URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
biodb.TRACE[2022-01-20 06:33:06.676][getBaseUrlRequestResult] Using base::url() for sending request (https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv).
biodb.INFO [2022-01-20 06:33:07.514][private$doSendRequestLoop] Error when retrieving URL content HTTP error 404 (""). When contacting URL "https://www.lipidmaps.org/databases/lmsd/WRONGB?format=tsv". Retrying connection to server...
biodb.DEBUG[2022-01-20 06:33:07.517][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:33:07.519][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:07.521][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:07.572][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:07.574][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:07.576][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:07.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:07.579][scheduler$sendRequest] Getting content of get URL request "https://www.lipidmaps.org/databases/lmsd/LMFA08040013?format=tsv".
biodb.DEBUG[2022-01-20 06:33:07.584][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:33:07.585][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:33:07.587][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/LMFA08040013?format=tsv".
biodb.TRACE[2022-01-20 06:33:08.250][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/databases/lmsd/LMFA08040013?format=tsv).
biodb.DEBUG[2022-01-20 06:33:08.934][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-01-20 06:33:08.949][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/0fdeb15a49cfc75bfed9dd3f524ffa41.content"
biodb.TRACE[2022-01-20 06:33:08.973][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/0fdeb15a49cfc75bfed9dd3f524ffa41.request"
biodb.TRACE[2022-01-20 06:33:08.995][private$doSaveContentToFile] Saving to cache [2]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/WRONGB.tsv, /home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA08040013.tsv"
biodb.DEBUG[2022-01-20 06:33:09.004][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-20 06:33:09.022][self$createEntryFromContent] Creating LIPID MAPS Structure entries from 2 content(s).
biodb.DEBUG[2022-01-20 06:33:09.024][self$createEntryFromContent] Parsing 2 LIPID MAPS Structure entries.
biodb.DEBUG[2022-01-20 06:33:09.027][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:33:09.029][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:09.030][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:09.033][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:09.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:09.036][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:09.037][FUN] Functions in observer BiodbConfig: [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[2022-01-20 06:33:09.041][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:09.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:09.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.048][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:09.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:09.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.054][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:09.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:09.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:33:09.061][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:33:09.062][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:09.063][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:09.067][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:09.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:09.069][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:09.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 06:33:09.110][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:09.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:09.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.117][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:09.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:09.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.130][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:33:09.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:33:09.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.138][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:33:09.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:33:09.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.147][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:33:09.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:33:09.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.151][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:33:09.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:33:09.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.161][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:33:09.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:33:09.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.166][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:33:09.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:33:09.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.175][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:33:09.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:33:09.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.181][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:33:09.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:33:09.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.191][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:33:09.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:33:09.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.196][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:33:09.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:33:09.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.206][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-01-20 06:33:09.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:33:09.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.212][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-01-20 06:33:09.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:33:09.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.222][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:33:09.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:33:09.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.227][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:33:09.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:33:09.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.238][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:33:09.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:09.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.244][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:33:09.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:09.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.255][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-01-20 06:33:09.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:09.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.261][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2022-01-20 06:33:09.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:09.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.266][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:33:09.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:09.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.271][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:33:09.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:09.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.276][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-01-20 06:33:09.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:09.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.286][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:33:09.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:09.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.292][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:33:09.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:09.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.297][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:33:09.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:09.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.302][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:33:09.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:09.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.307][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:33:09.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:09.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.318][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:09.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:09.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.341][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:09.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:09.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.346][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:09.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:09.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.350][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:09.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:09.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:09.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:09.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.358][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:09.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:09.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:09.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:09.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.370][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:09.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:09.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.375][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:09.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:09.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.380][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:09.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:09.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:09.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:09.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.390][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:09.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:09.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:09.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:09.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:09.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:09.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:09.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:09.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:09.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:09.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:33:09.408][self$createEntryFromContent] Accession numbers: NA, LMFA08040013.
biodb.DEBUG[2022-01-20 06:33:09.409][self$createEntryFromContent] Found %d entry/ies without an accession number. Set it/them to NULL.1
biodb.DEBUG[2022-01-20 06:33:09.411][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2022-01-20 06:33:09.422][biodb::testThat] 
biodb.INFO [2022-01-20 06:33:09.423][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2022-01-20 06:33:09.424][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:33:09.425][biodb::testThat] 
biodb.INFO [2022-01-20 06:33:09.448][biodb::testThat] 
biodb.INFO [2022-01-20 06:33:09.449][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2022-01-20 06:33:09.450][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:33:09.451][biodb::testThat] 
biodb.INFO [2022-01-20 06:33:09.457][biodb::testThat] 
biodb.INFO [2022-01-20 06:33:09.458][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2022-01-20 06:33:09.459][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:33:09.460][biodb::testThat] 
biodb.DEBUG[2022-01-20 06:33:09.487][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[2022-01-20 06:33:09.491][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:33:09.492][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:33:09.494][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV".
biodb.TRACE[2022-01-20 06:33:13.868][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV).
biodb.DEBUG[2022-01-20 06:33:24.163][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-01-20 06:33:24.176][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/13e15253cf65619ae7a700f5534f6030.content"
biodb.TRACE[2022-01-20 06:33:24.206][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/13e15253cf65619ae7a700f5534f6030.request"
biodb.INFO [2022-01-20 06:33:24.601][biodb::testThat] 
biodb.INFO [2022-01-20 06:33:24.602][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2022-01-20 06:33:24.603][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:33:24.604][biodb::testThat] 
biodb.ERROR[2022-01-20 06:33:24.617][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2022-01-20 06:33:24.630][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2022-01-20 06:33:24.637][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2022-01-20 06:33:24.639][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector lipidmaps.structure from the request scheduler
biodb.INFO [2022-01-20 06:33:24.640][self$deleteConn] Connector "lipidmaps.structure" deleted.
biodb.DEBUG[2022-01-20 06:33:24.641][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-01-20 06:33:24.642][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:24.643][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:24.644][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:24.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:24.646][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:24.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2022-01-20 06:33:24.652][biodb::testContext] 
biodb.INFO [2022-01-20 06:33:24.654][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-20 06:33:24.655][biodb::testContext] Test context - Web services tests
biodb.INFO [2022-01-20 06:33:24.656][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-20 06:33:24.657][biodb::testContext] 
biodb.INFO [2022-01-20 06:33:24.664][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.2.2.
biodb.DEBUG[2022-01-20 06:33:24.666][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.14-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2022-01-20 06:33:24.671][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-20 06:33:24.672][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-01-20 06:33:24.674][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-01-20 06:33:24.675][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:24.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:24.676][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[2022-01-20 06:33:24.677][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-01-20 06:33:24.697][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-01-20 06:33:24.698][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:24.700][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:24.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:24.702][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-01-20 06:33:24.703][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-01-20 06:33:24.704][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:24.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:24.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:24.707][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-01-20 06:33:24.708][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-01-20 06:33:24.709][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-01-20 06:33:24.710][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:24.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:24.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:24.713][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-01-20 06:33:24.714][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-01-20 06:33:24.715][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-01-20 06:33:24.716][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:24.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:24.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:24.719][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-01-20 06:33:24.720][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-01-20 06:33:24.721][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:24.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:24.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:24.724][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-01-20 06:33:24.725][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-01-20 06:33:24.726][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-01-20 06:33:24.727][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:24.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:24.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:24.763][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-01-20 06:33:24.764][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-01-20 06:33:24.768][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:24.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:24.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:24.771][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-01-20 06:33:24.772][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-01-20 06:33:24.773][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-01-20 06:33:24.774][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:24.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:24.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:24.776][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-01-20 06:33:24.777][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-01-20 06:33:24.778][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-01-20 06:33:24.779][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-01-20 06:33:24.780][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-01-20 06:33:24.781][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-01-20 06:33:24.782][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:24.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:24.784][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:24.785][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-01-20 06:33:24.786][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-01-20 06:33:24.787][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:24.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:24.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:24.790][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-01-20 06:33:24.791][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-01-20 06:33:24.792][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:24.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:24.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:24.794][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-01-20 06:33:24.796][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-01-20 06:33:24.797][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:24.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:24.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:24.799][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-01-20 06:33:24.800][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-01-20 06:33:24.801][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:24.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:24.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:24.804][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-01-20 06:33:24.805][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-01-20 06:33:24.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:24.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:24.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:24.808][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-01-20 06:33:24.809][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-01-20 06:33:24.813][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2022-01-20 06:33:24.814][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:24.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:24.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:24.816][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-01-20 06:33:24.817][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-01-20 06:33:24.818][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-01-20 06:33:24.819][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:24.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:24.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:24.822][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-01-20 06:33:24.824][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-20 06:33:24.840][self$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[2022-01-20 06:33:24.841][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:24.843][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 06:33:24.844][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:24.845][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 06:33:24.845][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 06:33:24.846][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 06:33:24.847][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-20 06:33:24.848][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 06:33:24.849][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:24.850][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-01-20 06:33:24.851][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 06:33:24.852][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:33:24.853][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:24.854][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-20 06:33:24.854][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 06:33:24.854][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-20 06:33:24.854][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-20 06:33:24.854][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-20 06:33:24.855][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 06:33:24.856][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:33:24.856][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:33:24.857][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 06:33:24.858][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:33:24.859][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:33:24.860][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 06:33:24.861][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:33:24.862][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 06:33:24.863][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 06:33:24.863][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 06:33:24.864][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:33:24.865][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-01-20 06:33:24.867][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-20 06:33:24.868][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-01-20 06:33:24.869][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:24.870][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 06:33:24.871][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:24.872][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 06:33:24.873][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 06:33:24.874][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 06:33:24.875][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-20 06:33:24.876][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 06:33:24.876][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:24.877][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-01-20 06:33:24.878][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 06:33:24.879][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:33:24.880][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:24.881][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-20 06:33:24.881][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 06:33:24.881][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-20 06:33:24.881][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-20 06:33:24.881][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-20 06:33:24.882][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 06:33:24.883][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:33:24.884][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:33:24.885][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 06:33:24.886][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:33:24.887][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:33:24.888][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 06:33:24.888][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:33:24.889][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 06:33:24.890][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 06:33:24.891][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 06:33:24.892][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:33:24.893][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-01-20 06:33:24.895][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:24.896][self$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[2022-01-20 06:33:24.897][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:24.898][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 06:33:24.899][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:24.900][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 06:33:24.901][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 06:33:24.902][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 06:33:24.903][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-20 06:33:24.904][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 06:33:24.905][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-20 06:33:24.919][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-01-20 06:33:24.921][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 06:33:24.922][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:33:24.923][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:24.924][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:33:24.925][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 06:33:24.926][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:33:24.927][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:33:24.928][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 06:33:24.929][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:33:24.930][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:33:24.931][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 06:33:24.932][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:33:24.933][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 06:33:24.934][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 06:33:24.935][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 06:33:24.935][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:33:24.937][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-01-20 06:33:24.938][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:24.939][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-01-20 06:33:24.940][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:24.941][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 06:33:24.942][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:24.943][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 06:33:24.944][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 06:33:24.945][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 06:33:24.946][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-20 06:33:24.947][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 06:33:24.948][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-20 06:33:24.949][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-01-20 06:33:24.950][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 06:33:24.951][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:33:24.952][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:24.953][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:33:24.954][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 06:33:24.955][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:33:24.955][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:33:24.956][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 06:33:24.957][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:33:24.958][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:33:24.959][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 06:33:24.960][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:33:24.961][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 06:33:24.962][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 06:33:24.963][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 06:33:24.963][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:33:24.965][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-20 06:33:24.966][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:24.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:24.967][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:24.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:24.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:24.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:24.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:24.971][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:24.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:24.973][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:24.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:24.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:24.976][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:24.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:24.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:24.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:24.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:24.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:24.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:24.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:24.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:24.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:24.984][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:24.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:24.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:24.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:24.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:24.988][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:24.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:24.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:24.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:24.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:24.992][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:24.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:24.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:24.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:24.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:24.996][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:24.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:24.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:24.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:24.999][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[2022-01-20 06:33:25.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:25.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:25.002][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:25.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:25.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:25.004][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:25.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:25.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:25.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:25.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:25.008][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:25.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:25.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:25.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:25.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:25.012][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:25.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:25.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:25.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:25.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:25.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:25.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:25.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:25.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:25.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:25.021][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:25.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:25.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:25.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:25.024][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[2022-01-20 06:33:25.025][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:25.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:25.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:25.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:25.028][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:25.029][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:25.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:25.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:25.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:25.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:25.033][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:25.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:25.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:25.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:25.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:25.037][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-01-20 06:33:25.039][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-01-20 06:33:25.040][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-01-20 06:33:25.042][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-01-20 06:33:25.043][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-01-20 06:33:25.045][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-01-20 06:33:25.046][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-01-20 06:33:25.047][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-01-20 06:33:25.049][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-01-20 06:33:25.050][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-01-20 06:33:25.052][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-20 06:33:25.053][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-01-20 06:33:25.054][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-01-20 06:33:25.056][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-01-20 06:33:25.057][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-01-20 06:33:25.074][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-20 06:33:25.076][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-01-20 06:33:25.078][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-01-20 06:33:25.079][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-01-20 06:33:25.081][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-01-20 06:33:25.082][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-01-20 06:33:25.084][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-01-20 06:33:25.085][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-01-20 06:33:25.086][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-01-20 06:33:25.088][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-01-20 06:33:25.089][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-01-20 06:33:25.091][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-01-20 06:33:25.092][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-01-20 06:33:25.093][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-01-20 06:33:25.095][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-01-20 06:33:25.096][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-01-20 06:33:25.098][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-01-20 06:33:25.099][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-01-20 06:33:25.100][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-01-20 06:33:25.102][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-01-20 06:33:25.103][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-01-20 06:33:25.104][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-01-20 06:33:25.105][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-01-20 06:33:25.107][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-01-20 06:33:25.108][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-01-20 06:33:25.109][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-01-20 06:33:25.111][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-01-20 06:33:25.112][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-01-20 06:33:25.113][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-01-20 06:33:25.115][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-01-20 06:33:25.116][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-01-20 06:33:25.117][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-01-20 06:33:25.119][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-01-20 06:33:25.120][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-01-20 06:33:25.121][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-01-20 06:33:25.123][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-01-20 06:33:25.124][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-01-20 06:33:25.125][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-01-20 06:33:25.127][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-01-20 06:33:25.128][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-01-20 06:33:25.129][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-01-20 06:33:25.131][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-01-20 06:33:25.132][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-01-20 06:33:25.133][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-01-20 06:33:25.134][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-01-20 06:33:25.136][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-01-20 06:33:25.137][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-01-20 06:33:25.138][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-01-20 06:33:25.140][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-01-20 06:33:25.141][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-01-20 06:33:25.142][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-01-20 06:33:25.144][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-01-20 06:33:25.145][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-01-20 06:33:25.146][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-01-20 06:33:25.148][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-01-20 06:33:25.149][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-01-20 06:33:25.150][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-01-20 06:33:25.152][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-01-20 06:33:25.153][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-01-20 06:33:25.154][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-01-20 06:33:25.156][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-01-20 06:33:25.157][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-01-20 06:33:25.158][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-01-20 06:33:25.159][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-01-20 06:33:25.161][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-01-20 06:33:25.162][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-01-20 06:33:25.163][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-01-20 06:33:25.165][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-01-20 06:33:25.171][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-01-20 06:33:25.173][initialize] This is biodb version 1.2.2.
biodb.DEBUG[2022-01-20 06:33:25.174][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-20 06:33:25.175][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:25.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:25.177][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:25.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:25.179][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:25.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:25.180][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:25.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:25.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:25.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:25.184][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[2022-01-20 06:33:25.185][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:25.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:25.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:25.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:25.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:25.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:25.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:25.191][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:25.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:25.193][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:25.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:25.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:25.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:25.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:25.197][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:25.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:25.199][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:25.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:25.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:25.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:25.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:25.204][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:25.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:25.205][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:25.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:25.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:25.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:25.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:25.210][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:25.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:25.211][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:25.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:25.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:25.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:25.233][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:25.234][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:25.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:25.236][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:25.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:25.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:25.239][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:25.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:25.241][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:25.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:25.242][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:25.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:25.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:25.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:25.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:25.247][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:25.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:25.248][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:25.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:25.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:25.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:25.252][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:25.253][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:25.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:25.254][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:25.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:25.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:25.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:25.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:25.259][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:25.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:25.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:25.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:25.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:25.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:25.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:25.265][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:25.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:25.266][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:25.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:25.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:25.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:25.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:25.271][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:25.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:25.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:25.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:25.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:25.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:25.276][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:25.276][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:25.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:25.278][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:25.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:25.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:25.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:25.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:25.282][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:25.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:25.284][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:25.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:25.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:25.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:25.287][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:25.288][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:25.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:25.290][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:25.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:25.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:25.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:25.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:25.294][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:25.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:25.296][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:25.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:25.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:25.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:25.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:25.300][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.14-bioc/R/library/biodbLipidmaps/definitions.yml".
biodb.DEBUG[2022-01-20 06:33:25.310][self$getDbsInfo()$define] Define connector lipidmaps.structure.
biodb.DEBUG[2022-01-20 06:33:25.313][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-20 06:33:25.314][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2022-01-20 06:33:25.315][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:25.316][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 06:33:25.317][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:25.318][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 06:33:25.319][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:25.320][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 06:33:25.321][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-20 06:33:25.322][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 06:33:25.323][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:25.324][self$setPropertyValue] Setting property "name" to "LIPID MAPS Structure".
biodb.DEBUG[2022-01-20 06:33:25.325][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 06:33:25.326][self$setPropertyValue] Setting property "parsing.expr" to "LM_ID".
biodb.DEBUG[2022-01-20 06:33:25.326][self$setPropertyValue] Setting property "parsing.expr" to "CHEBI_ID".
biodb.DEBUG[2022-01-20 06:33:25.326][self$setPropertyValue] Setting property "parsing.expr" to "HMDBID".
biodb.DEBUG[2022-01-20 06:33:25.326][self$setPropertyValue] Setting property "parsing.expr" to "KEGG_ID".
biodb.DEBUG[2022-01-20 06:33:25.326][self$setPropertyValue] Setting property "parsing.expr" to "PUBCHEM_COMPOUND_ID".
biodb.DEBUG[2022-01-20 06:33:25.326][self$setPropertyValue] Setting property "parsing.expr" to "SYSTEMATIC_NAME".
biodb.DEBUG[2022-01-20 06:33:25.326][self$setPropertyValue] Setting property "parsing.expr" to "MASS".
biodb.DEBUG[2022-01-20 06:33:25.326][self$setPropertyValue] Setting property "parsing.expr" to "FORMULA".
biodb.DEBUG[2022-01-20 06:33:25.326][self$setPropertyValue] Setting property "parsing.expr" to "COMMON_NAME".
biodb.DEBUG[2022-01-20 06:33:25.327][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2022-01-20 06:33:25.328][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-20 06:33:25.328][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 06:33:25.329][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 06:33:25.330][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:33:25.331][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:33:25.332][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 06:33:25.333][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:33:25.334][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:33:25.335][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 06:33:25.336][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/data/".
biodb.DEBUG[2022-01-20 06:33:25.336][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/databases/lmsd/".
biodb.DEBUG[2022-01-20 06:33:25.336][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 06:33:25.337][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 06:33:25.338][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:25.339][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:33:25.346][self$getEntryFields()$define] Define field lipidmaps.structure.id.
biodb.DEBUG[2022-01-20 06:33:25.348][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-20 06:33:25.354][initialize] Initialize connector lipidmaps.structure.
biodb.DEBUG[2022-01-20 06:33:25.356][initialize] Register connector lipidmaps.structure with the request scheduler
biodb.DEBUG[2022-01-20 06:33:25.358][private$bdb$getRequestScheduler()$re ...] Register connector lipidmaps.structure.
biodb.DEBUG[2022-01-20 06:33:25.360][private$addConnectorRules] Create new rule for URL "www.lipidmaps.org" of connector "lipidmaps.structure".
biodb.DEBUG[2022-01-20 06:33:25.362][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2022-01-20 06:33:25.364][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2022-01-20 06:33:25.366][rule$addConnector] Connector "lipidmaps.structure" is already listed in rule "www.lipidmaps.org".
biodb.DEBUG[2022-01-20 06:33:25.367][biodb$getFactory()$createConn] Creating new connector lipidmaps.structure for database class lipidmaps.structure .
biodb.INFO [2022-01-20 06:33:25.370][biodb::testThat] 
biodb.INFO [2022-01-20 06:33:25.371][biodb::testThat] Running test function  test_wsLmsdRecord_searchByName  (" wsLmsdRecord() can search by name. ").
biodb.INFO [2022-01-20 06:33:25.372][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:33:25.374][biodb::testThat] 
biodb.DEBUG[2022-01-20 06:33:25.428][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=anhydride".
biodb.DEBUG[2022-01-20 06:33:25.433][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:33:25.434][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:33:25.436][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=anhydride".
biodb.TRACE[2022-01-20 06:33:26.076][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[2022-01-20 06:33:26.752][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-01-20 06:33:26.764][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/cfd52aa1c2e3525a5defd7b7e8bd8bb8.content"
biodb.TRACE[2022-01-20 06:33:26.786][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/cfd52aa1c2e3525a5defd7b7e8bd8bb8.request"
biodb.DEBUG[2022-01-20 06:33:26.857][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[2022-01-20 06:33:26.861][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:33:26.862][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:33:26.864][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=fatty".
biodb.TRACE[2022-01-20 06:33:27.505][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=fatty).
biodb.DEBUG[2022-01-20 06:33:28.107][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-01-20 06:33:28.116][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/4ae22a112f570b93d2a956448ab71bd0.content"
biodb.TRACE[2022-01-20 06:33:28.129][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/4ae22a112f570b93d2a956448ab71bd0.request"
biodb.INFO [2022-01-20 06:33:28.139][biodb::testThat] 
biodb.INFO [2022-01-20 06:33:28.140][biodb::testThat] Running test function  test_wsLmsdRecord  (" Test web service wsLmsdRecord. ").
biodb.INFO [2022-01-20 06:33:28.141][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:33:28.142][biodb::testThat] 
biodb.INFO [2022-01-20 06:33:28.154][biodb::testThat] 
biodb.INFO [2022-01-20 06:33:28.155][biodb::testThat] Running test function  test_wsLmsdSearch  (" Test web service wsLmsdSearch. ").
biodb.INFO [2022-01-20 06:33:28.156][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:33:28.157][biodb::testThat] 
biodb.DEBUG[2022-01-20 06:33:28.201][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&LMID=LMSL02000001".
biodb.DEBUG[2022-01-20 06:33:28.204][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:33:28.205][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:33:28.207][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&LMID=LMSL02000001".
biodb.TRACE[2022-01-20 06:33:28.682][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&LMID=LMSL02000001).
biodb.DEBUG[2022-01-20 06:33:29.215][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-01-20 06:33:29.229][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/cb051dd8deddba61124ac06645747646.content"
biodb.TRACE[2022-01-20 06:33:29.246][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/cb051dd8deddba61124ac06645747646.request"
biodb.DEBUG[2022-01-20 06:33:29.281][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[2022-01-20 06:33:29.284][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-20 06:33:29.286][cch$loadFileContent] Trying to load 1 files from cache: [1]: "cb051dd8deddba61124ac06645747646".
biodb.TRACE[2022-01-20 06:33:29.287][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-20 06:33:29.289][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/cb051dd8deddba61124ac06645747646.content".
biodb.DEBUG[2022-01-20 06:33:29.364][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[2022-01-20 06:33:29.368][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:33:29.369][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:33:29.371][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&LMID=LMSL02000001".
biodb.TRACE[2022-01-20 06:33:29.847][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&LMID=LMSL02000001).
biodb.DEBUG[2022-01-20 06:33:30.366][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-01-20 06:33:30.376][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/9edcc233717c530cf0cbf5f73b9c3fc7.content"
biodb.TRACE[2022-01-20 06:33:30.390][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/9edcc233717c530cf0cbf5f73b9c3fc7.request"
biodb.DEBUG[2022-01-20 06:33:30.438][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&Name=acid".
biodb.DEBUG[2022-01-20 06:33:30.441][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:33:30.443][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:33:30.444][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&Name=acid".
biodb.TRACE[2022-01-20 06:33:31.756][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&Name=acid).
biodb.DEBUG[2022-01-20 06:33:34.768][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-01-20 06:33:34.779][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/be9130a77f849b73da505cd10830451e.content"
biodb.TRACE[2022-01-20 06:33:34.797][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/be9130a77f849b73da505cd10830451e.request"
biodb.DEBUG[2022-01-20 06:33:34.876][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[2022-01-20 06:33:34.879][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:33:34.880][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:33:34.882][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&Name=acid&ExactMass=60.8&ExactMassOffSet=6".
biodb.TRACE[2022-01-20 06:33:36.233][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&Name=acid&ExactMass=60.8&ExactMassOffSet=6).
biodb.DEBUG[2022-01-20 06:33:39.056][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2022-01-20 06:33:39.065][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/6821b039f49696a2484834eb67daa971.content"
biodb.TRACE[2022-01-20 06:33:39.080][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/6821b039f49696a2484834eb67daa971.request"
biodb.INFO [2022-01-20 06:33:39.129][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2022-01-20 06:33:39.130][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector lipidmaps.structure from the request scheduler
biodb.INFO [2022-01-20 06:33:39.132][self$deleteConn] Connector "lipidmaps.structure" deleted.
biodb.DEBUG[2022-01-20 06:33:39.132][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-01-20 06:33:39.133][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:39.134][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:39.135][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:39.136][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:39.136][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2022-01-20 06:33:39.142][biodb::testContext] 
biodb.INFO [2022-01-20 06:33:39.143][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-20 06:33:39.144][biodb::testContext] Test context - Some other custom tests
biodb.INFO [2022-01-20 06:33:39.145][biodb::testContext] ********************************************************************************
biodb.INFO [2022-01-20 06:33:39.146][biodb::testContext] 
biodb.INFO [2022-01-20 06:33:39.152][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.2.2.
biodb.DEBUG[2022-01-20 06:33:39.154][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.14-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2022-01-20 06:33:39.165][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-20 06:33:39.167][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2022-01-20 06:33:39.169][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2022-01-20 06:33:39.170][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.173][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2022-01-20 06:33:39.232][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2022-01-20 06:33:39.233][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.237][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2022-01-20 06:33:39.238][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2022-01-20 06:33:39.239][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.239][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.241][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2022-01-20 06:33:39.242][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2022-01-20 06:33:39.243][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2022-01-20 06:33:39.244][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.247][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2022-01-20 06:33:39.248][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2022-01-20 06:33:39.249][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2022-01-20 06:33:39.250][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.252][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.253][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2022-01-20 06:33:39.254][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2022-01-20 06:33:39.254][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.257][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2022-01-20 06:33:39.258][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2022-01-20 06:33:39.259][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2022-01-20 06:33:39.260][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.263][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2022-01-20 06:33:39.264][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2022-01-20 06:33:39.265][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.267][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.268][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2022-01-20 06:33:39.269][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2022-01-20 06:33:39.270][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2022-01-20 06:33:39.271][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.277][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2022-01-20 06:33:39.278][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2022-01-20 06:33:39.279][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2022-01-20 06:33:39.280][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2022-01-20 06:33:39.281][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2022-01-20 06:33:39.282][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2022-01-20 06:33:39.283][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.286][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2022-01-20 06:33:39.287][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2022-01-20 06:33:39.288][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.291][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2022-01-20 06:33:39.292][self$set] Set key entries.sep to "|".
biodb.DEBUG[2022-01-20 06:33:39.293][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.295][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2022-01-20 06:33:39.296][self$set] Set key offline to FALSE.
biodb.DEBUG[2022-01-20 06:33:39.297][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.300][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2022-01-20 06:33:39.301][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2022-01-20 06:33:39.302][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.305][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2022-01-20 06:33:39.306][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2022-01-20 06:33:39.307][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.309][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[2022-01-20 06:33:39.310][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2022-01-20 06:33:39.311][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2022-01-20 06:33:39.316][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2022-01-20 06:33:39.318][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.320][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.321][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2022-01-20 06:33:39.322][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2022-01-20 06:33:39.323][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2022-01-20 06:33:39.324][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.328][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2022-01-20 06:33:39.330][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-20 06:33:39.349][self$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[2022-01-20 06:33:39.351][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:39.353][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 06:33:39.354][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:39.355][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 06:33:39.356][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 06:33:39.357][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 06:33:39.358][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-20 06:33:39.360][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 06:33:39.361][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:39.362][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2022-01-20 06:33:39.363][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 06:33:39.364][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:33:39.365][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:39.366][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-20 06:33:39.366][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 06:33:39.366][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-20 06:33:39.366][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-20 06:33:39.366][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-20 06:33:39.367][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 06:33:39.368][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:33:39.369][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:33:39.370][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 06:33:39.371][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:33:39.372][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:33:39.373][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 06:33:39.375][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:33:39.376][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 06:33:39.377][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 06:33:39.378][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 06:33:39.379][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:33:39.380][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2022-01-20 06:33:39.382][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-20 06:33:39.384][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2022-01-20 06:33:39.385][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:39.386][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 06:33:39.387][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:39.388][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 06:33:39.389][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 06:33:39.390][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 06:33:39.391][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-20 06:33:39.411][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 06:33:39.413][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:39.415][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2022-01-20 06:33:39.416][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 06:33:39.417][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:33:39.418][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:39.419][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-20 06:33:39.419][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 06:33:39.419][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2022-01-20 06:33:39.419][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2022-01-20 06:33:39.419][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2022-01-20 06:33:39.420][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 06:33:39.421][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:33:39.422][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:33:39.423][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 06:33:39.424][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:33:39.425][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:33:39.426][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 06:33:39.427][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:33:39.428][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 06:33:39.429][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 06:33:39.430][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 06:33:39.431][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:33:39.433][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2022-01-20 06:33:39.435][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:39.436][self$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[2022-01-20 06:33:39.437][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:39.438][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 06:33:39.439][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:39.440][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 06:33:39.440][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 06:33:39.441][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 06:33:39.442][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-20 06:33:39.443][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 06:33:39.444][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-20 06:33:39.445][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2022-01-20 06:33:39.446][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 06:33:39.447][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:33:39.448][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:39.449][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:33:39.450][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 06:33:39.451][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:33:39.452][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:33:39.453][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 06:33:39.454][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:33:39.455][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:33:39.455][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 06:33:39.456][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:33:39.457][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 06:33:39.458][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 06:33:39.459][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 06:33:39.460][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:33:39.461][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2022-01-20 06:33:39.463][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:39.464][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2022-01-20 06:33:39.465][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:39.466][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 06:33:39.467][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:39.468][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 06:33:39.468][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2022-01-20 06:33:39.469][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 06:33:39.470][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2022-01-20 06:33:39.471][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 06:33:39.472][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2022-01-20 06:33:39.473][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2022-01-20 06:33:39.474][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 06:33:39.475][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:33:39.476][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:39.477][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:33:39.478][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 06:33:39.479][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:33:39.479][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:33:39.480][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 06:33:39.481][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:33:39.482][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:33:39.483][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 06:33:39.484][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:33:39.485][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 06:33:39.485][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 06:33:39.486][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2022-01-20 06:33:39.487][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:33:39.488][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-20 06:33:39.489][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.491][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:39.492][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:39.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.495][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:39.496][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:39.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.499][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:39.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:39.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.502][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.503][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:39.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:39.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.507][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:39.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:39.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.511][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:39.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:39.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.515][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:39.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:39.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.519][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:39.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:39.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.523][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:39.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:39.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.526][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.527][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:39.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:39.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.530][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.531][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:39.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:39.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.534][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.535][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:39.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:39.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.539][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:39.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:39.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.542][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[2022-01-20 06:33:39.543][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:39.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:39.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.547][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[2022-01-20 06:33:39.547][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:39.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:39.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.566][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:39.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:39.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.570][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[2022-01-20 06:33:39.570][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:39.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:39.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.574][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.575][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2022-01-20 06:33:39.576][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2022-01-20 06:33:39.578][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2022-01-20 06:33:39.579][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2022-01-20 06:33:39.580][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2022-01-20 06:33:39.582][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2022-01-20 06:33:39.583][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2022-01-20 06:33:39.584][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2022-01-20 06:33:39.586][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2022-01-20 06:33:39.587][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2022-01-20 06:33:39.588][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2022-01-20 06:33:39.590][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2022-01-20 06:33:39.591][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2022-01-20 06:33:39.592][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2022-01-20 06:33:39.594][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2022-01-20 06:33:39.595][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-20 06:33:39.596][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2022-01-20 06:33:39.597][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2022-01-20 06:33:39.599][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2022-01-20 06:33:39.600][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2022-01-20 06:33:39.602][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2022-01-20 06:33:39.603][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2022-01-20 06:33:39.604][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2022-01-20 06:33:39.606][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2022-01-20 06:33:39.607][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2022-01-20 06:33:39.608][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2022-01-20 06:33:39.609][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2022-01-20 06:33:39.611][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2022-01-20 06:33:39.612][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2022-01-20 06:33:39.613][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2022-01-20 06:33:39.615][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2022-01-20 06:33:39.616][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2022-01-20 06:33:39.617][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2022-01-20 06:33:39.619][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2022-01-20 06:33:39.620][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2022-01-20 06:33:39.621][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2022-01-20 06:33:39.622][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2022-01-20 06:33:39.624][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2022-01-20 06:33:39.625][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2022-01-20 06:33:39.626][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2022-01-20 06:33:39.628][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2022-01-20 06:33:39.629][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2022-01-20 06:33:39.630][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2022-01-20 06:33:39.631][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2022-01-20 06:33:39.633][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2022-01-20 06:33:39.634][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2022-01-20 06:33:39.635][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2022-01-20 06:33:39.637][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2022-01-20 06:33:39.638][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2022-01-20 06:33:39.639][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2022-01-20 06:33:39.640][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2022-01-20 06:33:39.642][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2022-01-20 06:33:39.643][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2022-01-20 06:33:39.644][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2022-01-20 06:33:39.646][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2022-01-20 06:33:39.647][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2022-01-20 06:33:39.648][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2022-01-20 06:33:39.650][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2022-01-20 06:33:39.651][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2022-01-20 06:33:39.652][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2022-01-20 06:33:39.653][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2022-01-20 06:33:39.655][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2022-01-20 06:33:39.656][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2022-01-20 06:33:39.657][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2022-01-20 06:33:39.659][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2022-01-20 06:33:39.660][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2022-01-20 06:33:39.661][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2022-01-20 06:33:39.663][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2022-01-20 06:33:39.664][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2022-01-20 06:33:39.666][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2022-01-20 06:33:39.667][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2022-01-20 06:33:39.668][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2022-01-20 06:33:39.670][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2022-01-20 06:33:39.671][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2022-01-20 06:33:39.672][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2022-01-20 06:33:39.674][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2022-01-20 06:33:39.675][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2022-01-20 06:33:39.677][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2022-01-20 06:33:39.678][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2022-01-20 06:33:39.680][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2022-01-20 06:33:39.681][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2022-01-20 06:33:39.683][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2022-01-20 06:33:39.684][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2022-01-20 06:33:39.686][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2022-01-20 06:33:39.687][initialize] This is biodb version 1.2.2.
biodb.DEBUG[2022-01-20 06:33:39.689][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2022-01-20 06:33:39.689][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:39.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:39.691][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.693][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:39.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:39.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:39.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:39.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.718][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:39.720][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:39.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:39.722][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:39.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.725][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:39.727][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:39.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:39.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:39.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.731][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:39.732][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:39.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:39.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:39.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:39.738][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:39.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:39.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:39.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.743][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:39.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:39.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:39.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:39.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:39.750][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:39.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:39.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:39.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.755][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:39.756][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:39.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:39.758][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:39.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.761][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:39.762][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:39.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:39.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:39.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.766][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.767][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:39.769][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:39.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:39.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:39.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.773][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:39.775][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:39.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:39.777][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:39.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.780][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:39.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:39.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:39.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:39.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.786][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:39.788][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:39.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:39.790][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:39.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.793][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:39.795][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:39.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:39.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:39.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.800][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:39.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:39.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:39.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:39.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.806][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:39.808][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:39.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:39.810][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:39.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.812][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2022-01-20 06:33:39.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:39.814][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:39.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:39.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:39.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:39.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:39.820][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.14-bioc/R/library/biodbLipidmaps/definitions.yml".
biodb.DEBUG[2022-01-20 06:33:39.832][self$getDbsInfo()$define] Define connector lipidmaps.structure.
biodb.DEBUG[2022-01-20 06:33:39.835][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2022-01-20 06:33:39.836][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2022-01-20 06:33:39.837][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:39.838][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2022-01-20 06:33:39.839][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:39.840][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2022-01-20 06:33:39.841][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:39.842][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2022-01-20 06:33:39.843][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2022-01-20 06:33:39.844][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2022-01-20 06:33:39.845][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:39.846][self$setPropertyValue] Setting property "name" to "LIPID MAPS Structure".
biodb.DEBUG[2022-01-20 06:33:39.847][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2022-01-20 06:33:39.848][self$setPropertyValue] Setting property "parsing.expr" to "LM_ID".
biodb.DEBUG[2022-01-20 06:33:39.848][self$setPropertyValue] Setting property "parsing.expr" to "CHEBI_ID".
biodb.DEBUG[2022-01-20 06:33:39.848][self$setPropertyValue] Setting property "parsing.expr" to "HMDBID".
biodb.DEBUG[2022-01-20 06:33:39.848][self$setPropertyValue] Setting property "parsing.expr" to "KEGG_ID".
biodb.DEBUG[2022-01-20 06:33:39.848][self$setPropertyValue] Setting property "parsing.expr" to "PUBCHEM_COMPOUND_ID".
biodb.DEBUG[2022-01-20 06:33:39.848][self$setPropertyValue] Setting property "parsing.expr" to "SYSTEMATIC_NAME".
biodb.DEBUG[2022-01-20 06:33:39.848][self$setPropertyValue] Setting property "parsing.expr" to "MASS".
biodb.DEBUG[2022-01-20 06:33:39.848][self$setPropertyValue] Setting property "parsing.expr" to "FORMULA".
biodb.DEBUG[2022-01-20 06:33:39.848][self$setPropertyValue] Setting property "parsing.expr" to "COMMON_NAME".
biodb.DEBUG[2022-01-20 06:33:39.849][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2022-01-20 06:33:39.850][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2022-01-20 06:33:39.850][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2022-01-20 06:33:39.852][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2022-01-20 06:33:39.853][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:33:39.853][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:33:39.854][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2022-01-20 06:33:39.855][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2022-01-20 06:33:39.856][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2022-01-20 06:33:39.857][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2022-01-20 06:33:39.858][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/data/".
biodb.DEBUG[2022-01-20 06:33:39.858][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/databases/lmsd/".
biodb.DEBUG[2022-01-20 06:33:39.859][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2022-01-20 06:33:39.860][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2022-01-20 06:33:39.861][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2022-01-20 06:33:39.862][self$setPropertyValue] 
biodb.DEBUG[2022-01-20 06:33:39.885][self$getEntryFields()$define] Define field lipidmaps.structure.id.
biodb.DEBUG[2022-01-20 06:33:39.887][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2022-01-20 06:33:39.891][initialize] Initialize connector lipidmaps.structure.
biodb.DEBUG[2022-01-20 06:33:39.892][initialize] Register connector lipidmaps.structure with the request scheduler
biodb.DEBUG[2022-01-20 06:33:39.894][private$bdb$getRequestScheduler()$re ...] Register connector lipidmaps.structure.
biodb.DEBUG[2022-01-20 06:33:39.895][private$addConnectorRules] Create new rule for URL "www.lipidmaps.org" of connector "lipidmaps.structure".
biodb.DEBUG[2022-01-20 06:33:39.896][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2022-01-20 06:33:39.897][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2022-01-20 06:33:39.899][rule$addConnector] Connector "lipidmaps.structure" is already listed in rule "www.lipidmaps.org".
biodb.DEBUG[2022-01-20 06:33:39.900][biodb$getFactory()$createConn] Creating new connector lipidmaps.structure for database class lipidmaps.structure .
biodb.INFO [2022-01-20 06:33:39.902][biodb::testThat] 
biodb.INFO [2022-01-20 06:33:39.903][biodb::testThat] Running test function  test_noOtherConnNeeded  (" No other connector is needed. ").
biodb.INFO [2022-01-20 06:33:39.904][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2022-01-20 06:33:39.905][biodb::testThat] 
biodb.DEBUG[2022-01-20 06:33:39.931][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV".
biodb.DEBUG[2022-01-20 06:33:39.935][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2022-01-20 06:33:39.937][cch$loadFileContent] Trying to load 1 files from cache: [1]: "13e15253cf65619ae7a700f5534f6030".
biodb.TRACE[2022-01-20 06:33:39.938][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2022-01-20 06:33:39.989][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/13e15253cf65619ae7a700f5534f6030.content".
biodb.DEBUG[2022-01-20 06:33:40.595][private$loadEntries] Creating entries from ids [2]: "LMFA00000001, LMFA00000002".
biodb.DEBUG[2022-01-20 06:33:40.596][conn$getEntryContent] Get LIPID MAPS Structure entry content(s) for 2 id(s)...
biodb.TRACE[2022-01-20 06:33:40.598][cch$loadFileContent] Trying to load 2 files from cache: [2]: "LMFA00000001, LMFA00000002".
biodb.TRACE[2022-01-20 06:33:40.599][cch$loadFileContent] file.exist = [2]: "FALSE, TRUE".
biodb.TRACE[2022-01-20 06:33:40.600][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA00000002.tsv".
biodb.DEBUG[2022-01-20 06:33:40.601][conn$getEntryContent] 1 LIPID MAPS Structure entry content(s) loaded from cache.
biodb.DEBUG[2022-01-20 06:33:40.602][conn$getEntryContent] 1 entry content(s) need to be fetched from LIPID MAPS Structure database "https://www.lipidmaps.org/data/".
biodb.DEBUG[2022-01-20 06:33:40.603][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2022-01-20 06:33:40.604][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2022-01-20 06:33:40.607][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:33:40.608][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:40.609][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:40.611][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:40.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:40.612][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:40.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2022-01-20 06:33:40.614][scheduler$sendRequest] Getting content of get URL request "https://www.lipidmaps.org/databases/lmsd/LMFA00000001?format=tsv".
biodb.DEBUG[2022-01-20 06:33:40.617][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2022-01-20 06:33:40.618][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2022-01-20 06:33:40.619][private$doSendRequestOnce] Sent URL is "https://www.lipidmaps.org/databases/lmsd/LMFA00000001?format=tsv".
biodb.TRACE[2022-01-20 06:33:41.266][getRCurlRequestResult] Using RCurl package for sending request (https://www.lipidmaps.org/databases/lmsd/LMFA00000001?format=tsv).
biodb.DEBUG[2022-01-20 06:33:41.958][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2022-01-20 06:33:41.972][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f441f4b59d8c1fbcb63f4f502d20d459.content"
biodb.TRACE[2022-01-20 06:33:41.992][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f441f4b59d8c1fbcb63f4f502d20d459.request"
biodb.TRACE[2022-01-20 06:33:42.026][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA00000001.tsv"
biodb.DEBUG[2022-01-20 06:33:42.033][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2022-01-20 06:33:42.045][self$createEntryFromContent] Creating LIPID MAPS Structure entries from 2 content(s).
biodb.DEBUG[2022-01-20 06:33:42.047][self$createEntryFromContent] Parsing 2 LIPID MAPS Structure entries.
biodb.DEBUG[2022-01-20 06:33:42.049][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:33:42.051][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:42.052][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:42.054][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:42.055][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:42.056][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:42.057][FUN] Functions in observer BiodbConfig: [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[2022-01-20 06:33:42.062][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:42.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:42.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.067][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:42.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:42.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.089][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:33:42.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:33:42.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.094][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:33:42.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:33:42.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.098][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:33:42.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:33:42.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.103][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:33:42.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:33:42.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.156][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:33:42.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:33:42.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.164][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:33:42.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:33:42.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.169][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:33:42.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:33:42.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.178][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-01-20 06:33:42.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:33:42.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.182][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-01-20 06:33:42.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:33:42.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.190][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:33:42.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:33:42.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.194][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:33:42.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:33:42.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.202][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:33:42.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:42.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.205][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:33:42.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:42.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.213][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-01-20 06:33:42.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:42.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.217][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2022-01-20 06:33:42.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:42.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.220][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:33:42.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:42.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.224][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:33:42.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:42.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.228][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-01-20 06:33:42.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:42.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.235][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:33:42.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:42.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.239][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:33:42.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:42.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.243][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:33:42.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:42.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.246][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:33:42.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:42.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.250][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:33:42.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:42.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.257][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:42.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:42.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.261][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:42.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:42.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:42.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:42.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.268][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:42.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:42.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:42.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:42.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.276][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:42.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:42.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.279][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:42.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:42.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:33:42.299][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:33:42.300][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:42.301][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:42.302][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:42.303][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:42.304][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:42.305][FUN] Functions in observer BiodbConfig: [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[2022-01-20 06:33:42.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:42.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:42.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:42.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:42.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.320][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:33:42.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:33:42.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.324][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:33:42.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:33:42.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.331][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:33:42.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2022-01-20 06:33:42.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.335][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:33:42.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2022-01-20 06:33:42.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.339][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:33:42.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:33:42.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.343][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:33:42.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:33:42.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.351][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:33:42.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:33:42.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.354][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:33:42.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:33:42.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.362][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-01-20 06:33:42.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:33:42.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.366][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2022-01-20 06:33:42.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:33:42.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.374][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:33:42.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:33:42.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.379][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:33:42.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:33:42.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.387][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:33:42.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:42.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.391][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:33:42.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:42.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.399][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-01-20 06:33:42.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:42.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.403][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2022-01-20 06:33:42.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:42.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.406][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:33:42.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:42.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.410][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:33:42.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:42.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.414][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2022-01-20 06:33:42.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:42.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.421][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:42.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:42.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.425][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:42.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:42.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:42.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:42.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.444][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:42.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:42.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.447][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:42.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:42.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:42.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:42.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:42.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:42.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:42.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:42.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:42.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:42.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:42.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:42.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.473][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:42.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:42.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.477][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:42.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:42.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.480][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:42.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:42.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2022-01-20 06:33:42.484][self$createEntryFromContent] Accession numbers: LMFA00000001, LMFA00000002.
biodb.DEBUG[2022-01-20 06:33:42.486][conn$getBiodb()$entriesToDataframe] 2 entrie(s) to convert in data frame.
biodb.DEBUG[2022-01-20 06:33:42.488][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:33:42.488][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:42.489][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:42.491][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:42.492][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:42.492][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:42.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2022-01-20 06:33:42.495][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 06:33:42.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 06:33:42.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.499][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 06:33:42.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 06:33:42.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.503][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-20 06:33:42.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-20 06:33:42.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.506][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 06:33:42.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 06:33:42.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.510][private$selectFields] Fields none
biodb.TRACE[2022-01-20 06:33:42.511][private$selectFields] 
biodb.TRACE[2022-01-20 06:33:42.512][private$selectFields] Fields is null: TRUE
biodb.TRACE[2022-01-20 06:33:42.512][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-20 06:33:42.513][private$selectFields] Fields [7]: "accession, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, name, lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:33:42.514][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:42.515][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:42.516][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.517][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.518][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:33:42.519][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:33:42.520][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.521][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.522][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:33:42.523][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:33:42.524][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.524][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.525][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:33:42.526][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:33:42.527][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.528][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.529][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:33:42.530][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:33:42.531][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.532][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.532][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:33:42.533][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:42.534][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.535][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.536][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:42.537][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:42.538][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.539][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.540][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:42.541][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:42.542][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.543][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.544][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:33:42.545][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:33:42.545][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.546][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.547][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:33:42.548][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:33:42.549][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.550][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.551][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:33:42.552][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:33:42.553][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.554][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.555][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:33:42.556][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:33:42.557][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.558][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.559][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:33:42.560][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:42.560][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.561][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.562][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:42.563][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:42.564][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.565][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.566][private$selectFields] Fields [7]: "accession, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, name, lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:33:42.567][private$organizeFieldsByGroups] Fields [7]: "accession, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, name, lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:33:42.568][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:42.569][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:42.570][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.571][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.572][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:33:42.573][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:33:42.573][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.588][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.589][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:33:42.590][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:33:42.591][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.592][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.593][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:33:42.594][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:33:42.595][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.596][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.597][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:33:42.598][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:33:42.599][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.600][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.600][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:33:42.601][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:42.602][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.603][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.604][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:42.605][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:42.606][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.607][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.608][private$organizeFieldsByGroups] Groups [2]: "c("accession", "ncbi.pubchem.comp.id", "comp.iupac.name.syst", "monoisotopic.mass", "formula", "name", "lipidmaps.structure.id"), list()"
biodb.TRACE[2022-01-20 06:33:42.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:42.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:42.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.613][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:42.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:42.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.616][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:42.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:42.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.620][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:33:42.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:33:42.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.624][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:33:42.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:33:42.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.628][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:33:42.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:33:42.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.632][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:33:42.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:33:42.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.635][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:33:42.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:33:42.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.640][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:33:42.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:33:42.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.643][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:33:42.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:33:42.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.647][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:33:42.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:33:42.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.651][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:33:42.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:33:42.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.655][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:33:42.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:33:42.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.658][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:33:42.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:33:42.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.662][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:33:42.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:33:42.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.666][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:33:42.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:42.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.670][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:33:42.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:42.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.673][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:33:42.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:42.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.677][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:42.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:42.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.681][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:42.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:42.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.685][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:42.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:42.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.694][private$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[2022-01-20 06:33:42.695][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2022-01-20 06:33:42.696][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:42.697][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:42.699][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:42.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:42.701][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:42.702][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.TRACE[2022-01-20 06:33:42.713][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 06:33:42.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 06:33:42.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.717][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2022-01-20 06:33:42.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2022-01-20 06:33:42.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.734][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2022-01-20 06:33:42.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2022-01-20 06:33:42.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.738][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2022-01-20 06:33:42.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2022-01-20 06:33:42.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.742][private$selectFields] Fields none
biodb.TRACE[2022-01-20 06:33:42.742][private$selectFields] 
biodb.TRACE[2022-01-20 06:33:42.743][private$selectFields] Fields is null: TRUE
biodb.TRACE[2022-01-20 06:33:42.744][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2022-01-20 06:33:42.745][private$selectFields] Fields [8]: "accession, chebi.id, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, name, lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:33:42.746][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:42.747][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:42.748][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.749][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.750][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:33:42.751][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:33:42.751][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.752][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.753][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:33:42.754][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:33:42.755][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.756][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.757][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:33:42.758][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:33:42.759][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.760][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.760][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:33:42.761][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:33:42.762][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.763][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.764][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:33:42.765][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:33:42.766][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.767][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.768][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:33:42.769][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:42.770][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.770][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.771][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:42.772][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:42.773][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.774][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.775][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:42.776][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:42.777][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.778][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.779][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:33:42.780][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:33:42.780][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.781][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.782][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:33:42.783][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:33:42.784][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.785][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.786][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:33:42.787][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:33:42.788][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.789][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.790][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:33:42.790][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:33:42.791][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.792][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.793][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:33:42.794][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:33:42.795][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.796][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.797][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:33:42.798][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:42.799][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.799][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.800][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:42.801][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:42.802][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.803][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.804][private$selectFields] Fields [8]: "accession, chebi.id, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, name, lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:33:42.805][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, name, lipidmaps.structure.id"
biodb.TRACE[2022-01-20 06:33:42.806][ef$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:42.807][ef$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:42.808][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.809][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.809][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:33:42.810][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:33:42.811][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.812][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.813][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:33:42.814][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:33:42.815][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.816][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.817][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:33:42.818][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:33:42.819][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.820][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.820][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:33:42.822][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:33:42.822][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.823][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.824][ef$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:33:42.825][ef$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:33:42.826][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.827][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.828][ef$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:33:42.829][ef$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:42.830][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.831][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.832][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:42.833][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:42.834][ef$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.834][ef$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.835][private$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[2022-01-20 06:33:42.836][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:42.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:42.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.840][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:42.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:42.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.844][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2022-01-20 06:33:42.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2022-01-20 06:33:42.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.848][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:33:42.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:33:42.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.852][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:33:42.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:33:42.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.856][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2022-01-20 06:33:42.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2022-01-20 06:33:42.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.861][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:33:42.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:33:42.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.884][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:33:42.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:33:42.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.889][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:33:42.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2022-01-20 06:33:42.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.894][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:33:42.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:33:42.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.898][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:33:42.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:33:42.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.902][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:33:42.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2022-01-20 06:33:42.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.906][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:33:42.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:33:42.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.910][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:33:42.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:33:42.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.914][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:33:42.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2022-01-20 06:33:42.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.918][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:33:42.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:33:42.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.921][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:33:42.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:33:42.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.925][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2022-01-20 06:33:42.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2022-01-20 06:33:42.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.929][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:33:42.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:42.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.933][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:33:42.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:42.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.936][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2022-01-20 06:33:42.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2022-01-20 06:33:42.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.940][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:42.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:42.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.944][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:42.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:42.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.948][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:42.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2022-01-20 06:33:42.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2022-01-20 06:33:42.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2022-01-20 06:33:42.956][private$entriesToListOfDataframes] Entry converted to data frame: [1, 8]: [accession, chebi.id, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, ...] [LMFA00000002, 137783, 42607281, N-(3S-hydroxydecanoyl)-L-serine, 275.173274, ...].
biodb.DEBUG[2022-01-20 06:33:42.957][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.DEBUG[2022-01-20 06:33:42.958][conn$getBiodb()$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.INFO [2022-01-20 06:33:42.961][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2022-01-20 06:33:42.962][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector lipidmaps.structure from the request scheduler
biodb.INFO [2022-01-20 06:33:42.964][self$deleteConn] Connector "lipidmaps.structure" deleted.
biodb.DEBUG[2022-01-20 06:33:42.964][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2022-01-20 06:33:42.965][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2022-01-20 06:33:42.966][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2022-01-20 06:33:42.967][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2022-01-20 06:33:42.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2022-01-20 06:33:42.969][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2022-01-20 06:33:42.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 169 ]
> 
> proc.time()
   user  system elapsed 
 20.624   1.766 124.311 

Example timings

biodbLipidmaps.Rcheck/biodbLipidmaps-Ex.timings

nameusersystemelapsed
LipidmapsStructureConn1.7600.1071.868
LipidmapsStructureEntry0.3230.0010.323