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This page was generated on 2023-10-16 11:35:57 -0400 (Mon, 16 Oct 2023).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.2 LTS)x86_644.3.1 (2023-06-16) -- "Beagle Scouts" 4626
palomino3Windows Server 2022 Datacenterx644.3.1 (2023-06-16 ucrt) -- "Beagle Scouts" 4379
merida1macOS 12.6.4 Montereyx86_644.3.1 (2023-06-16) -- "Beagle Scouts" 4395
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 199/2230HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbLipidmaps 1.6.0  (landing page)
Pierrick Roger
Snapshot Date: 2023-10-15 14:00:13 -0400 (Sun, 15 Oct 2023)
git_url: https://git.bioconductor.org/packages/biodbLipidmaps
git_branch: RELEASE_3_17
git_last_commit: 3555696
git_last_commit_date: 2023-04-25 11:34:40 -0400 (Tue, 25 Apr 2023)
nebbiolo1Linux (Ubuntu 22.04.2 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino3Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 12.6.4 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson2macOS 12.6.1 Monterey / arm64see weekly results here

CHECK results for biodbLipidmaps on palomino3


To the developers/maintainers of the biodbLipidmaps package:
- 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 Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results

Summary

Package: biodbLipidmaps
Version: 1.6.0
Command: F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:biodbLipidmaps.install-out.txt --library=F:\biocbuild\bbs-3.17-bioc\R\library --no-vignettes --timings biodbLipidmaps_1.6.0.tar.gz
StartedAt: 2023-10-15 23:58:01 -0400 (Sun, 15 Oct 2023)
EndedAt: 2023-10-15 23:59:33 -0400 (Sun, 15 Oct 2023)
EllapsedTime: 92.6 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbLipidmaps.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:biodbLipidmaps.install-out.txt --library=F:\biocbuild\bbs-3.17-bioc\R\library --no-vignettes --timings biodbLipidmaps_1.6.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'F:/biocbuild/bbs-3.17-bioc/meat/biodbLipidmaps.Rcheck'
* using R version 4.3.1 (2023-06-16 ucrt)
* using platform: x86_64-w64-mingw32 (64-bit)
* R was compiled by
    gcc.exe (GCC) 12.2.0
    GNU Fortran (GCC) 12.2.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'biodbLipidmaps/DESCRIPTION' ... OK
* this is package 'biodbLipidmaps' version '1.6.0'
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'biodbLipidmaps' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in 'vignettes' ... OK
* checking examples ... OK
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
  Running 'testthat.R'
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: OK

Installation output

biodbLipidmaps.Rcheck/00install.out

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


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

Tests output

biodbLipidmaps.Rcheck/tests/testthat.Rout


R version 4.3.1 (2023-06-16 ucrt) -- "Beagle Scouts"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (64-bit)

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

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

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

> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbLipidmaps)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbLipidmaps")
biodb.INFO [2023-10-15 23:59:04.095][biodb::testContext]
biodb.INFO [2023-10-15 23:59:04.098][biodb::testContext] ********************************************************************************
biodb.INFO [2023-10-15 23:59:04.100][biodb::testContext] Test context - Generic tests
biodb.INFO [2023-10-15 23:59:04.101][biodb::testContext] ********************************************************************************
biodb.INFO [2023-10-15 23:59:04.102][biodb::testContext]
biodb.INFO [2023-10-15 23:59:04.110][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.8.1.
biodb.DEBUG[2023-10-15 23:59:04.113][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.17-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2023-10-15 23:59:04.122][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-15 23:59:04.124][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-10-15 23:59:04.126][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-10-15 23:59:04.127][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.131][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.132][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-10-15 23:59:04.153][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-10-15 23:59:04.155][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.162][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-10-15 23:59:04.163][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-10-15 23:59:04.165][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.169][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-10-15 23:59:04.170][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-10-15 23:59:04.172][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-10-15 23:59:04.174][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.178][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[2023-10-15 23:59:04.181][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-10-15 23:59:04.183][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-10-15 23:59:04.184][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-10-15 23:59:04.186][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.188][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.190][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-10-15 23:59:04.192][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-10-15 23:59:04.193][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.195][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.197][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-10-15 23:59:04.198][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-10-15 23:59:04.200][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-10-15 23:59:04.201][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.205][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-10-15 23:59:04.206][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-10-15 23:59:04.208][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.212][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-10-15 23:59:04.213][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-10-15 23:59:04.215][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-10-15 23:59:04.216][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.218][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.220][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-10-15 23:59:04.221][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-10-15 23:59:04.223][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-10-15 23:59:04.224][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-10-15 23:59:04.226][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-10-15 23:59:04.227][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-10-15 23:59:04.228][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.232][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-10-15 23:59:04.234][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-10-15 23:59:04.236][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.242][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-10-15 23:59:04.245][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-10-15 23:59:04.247][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.253][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-10-15 23:59:04.256][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-10-15 23:59:04.258][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.265][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-10-15 23:59:04.266][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-10-15 23:59:04.268][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.272][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-10-15 23:59:04.274][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-10-15 23:59:04.275][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.279][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-10-15 23:59:04.280][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-10-15 23:59:04.284][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-10-15 23:59:04.286][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.290][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-10-15 23:59:04.291][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-10-15 23:59:04.292][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-10-15 23:59:04.294][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.300][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-10-15 23:59:04.347][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:04.361][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-10-15 23:59:04.362][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:04.364][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 23:59:04.365][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:04.366][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 23:59:04.367][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:04.368][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 23:59:04.370][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-10-15 23:59:04.371][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 23:59:04.372][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:04.373][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-10-15 23:59:04.374][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 23:59:04.376][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:04.377][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:04.378][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-15 23:59:04.378][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-15 23:59:04.378][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-15 23:59:04.378][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-10-15 23:59:04.378][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-10-15 23:59:04.379][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 23:59:04.381][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:59:04.382][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:59:04.383][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 23:59:04.384][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:59:04.385][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:59:04.386][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 23:59:04.388][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:04.389][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 23:59:04.390][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 23:59:04.391][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:04.392][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:04.394][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-10-15 23:59:04.396][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:04.397][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-10-15 23:59:04.398][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:04.399][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 23:59:04.400][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:04.402][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 23:59:04.403][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:04.404][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 23:59:04.405][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-10-15 23:59:04.407][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 23:59:04.408][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:04.409][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-10-15 23:59:04.410][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 23:59:04.411][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:04.413][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:04.414][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-15 23:59:04.414][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-15 23:59:04.414][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-15 23:59:04.414][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-10-15 23:59:04.414][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-10-15 23:59:04.415][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 23:59:04.416][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:59:04.417][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:59:04.419][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 23:59:04.420][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:59:04.421][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:59:04.422][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 23:59:04.423][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:04.424][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 23:59:04.426][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 23:59:04.427][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:04.428][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:04.429][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-10-15 23:59:04.431][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:04.433][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-10-15 23:59:04.434][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:04.435][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 23:59:04.437][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:04.439][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 23:59:04.441][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:04.442][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 23:59:04.444][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-10-15 23:59:04.445][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 23:59:04.446][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:04.447][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-10-15 23:59:04.449][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 23:59:04.450][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:04.451][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:04.452][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:04.454][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 23:59:04.455][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:59:04.456][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:59:04.457][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 23:59:04.458][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:59:04.459][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:59:04.460][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 23:59:04.462][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:04.463][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 23:59:04.464][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 23:59:04.465][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:04.466][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:04.468][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-10-15 23:59:04.470][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:04.471][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-10-15 23:59:04.472][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:04.473][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 23:59:04.474][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:04.476][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 23:59:04.477][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:04.478][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 23:59:04.479][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-10-15 23:59:04.480][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 23:59:04.482][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:04.483][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-10-15 23:59:04.484][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 23:59:04.486][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:04.488][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:04.489][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:04.491][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 23:59:04.493][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:59:04.494][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:59:04.496][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 23:59:04.498][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:59:04.499][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:59:04.501][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 23:59:04.503][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:04.505][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 23:59:04.506][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 23:59:04.508][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:04.510][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:04.515][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-15 23:59:04.517][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.521][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:04.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:04.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.529][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:04.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:04.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:04.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:04.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.546][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:04.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:04.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.556][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:04.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:04.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.563][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.565][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:04.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:04.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.574][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:04.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:04.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.582][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:04.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:04.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.591][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:04.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:04.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.599][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:04.602][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:04.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.607][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:04.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:04.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.613][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:04.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:04.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:04.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:04.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.624][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:04.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:04.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.630][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:04.632][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:04.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:04.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:04.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.641][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:04.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:04.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.646][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-10-15 23:59:04.650][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-10-15 23:59:04.652][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-10-15 23:59:04.654][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-10-15 23:59:04.655][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-10-15 23:59:04.657][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-10-15 23:59:04.658][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-10-15 23:59:04.660][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-10-15 23:59:04.662][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-10-15 23:59:04.663][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-10-15 23:59:04.665][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-10-15 23:59:04.666][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-10-15 23:59:04.668][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-10-15 23:59:04.669][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-10-15 23:59:04.671][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-10-15 23:59:04.673][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-10-15 23:59:04.675][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-10-15 23:59:04.681][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-10-15 23:59:04.683][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-10-15 23:59:04.685][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-10-15 23:59:04.686][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-10-15 23:59:04.688][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-10-15 23:59:04.690][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-10-15 23:59:04.691][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-10-15 23:59:04.693][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-10-15 23:59:04.694][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-10-15 23:59:04.696][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-10-15 23:59:04.697][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-10-15 23:59:04.699][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-10-15 23:59:04.701][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-10-15 23:59:04.702][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-10-15 23:59:04.704][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-10-15 23:59:04.705][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-10-15 23:59:04.707][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-10-15 23:59:04.708][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-10-15 23:59:04.710][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-10-15 23:59:04.711][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-10-15 23:59:04.713][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-10-15 23:59:04.715][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-10-15 23:59:04.716][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-10-15 23:59:04.718][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-10-15 23:59:04.719][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-10-15 23:59:04.721][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-10-15 23:59:04.722][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-10-15 23:59:04.724][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-10-15 23:59:04.726][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-10-15 23:59:04.727][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-10-15 23:59:04.729][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-10-15 23:59:04.730][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-10-15 23:59:04.732][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-10-15 23:59:04.733][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-10-15 23:59:04.735][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-10-15 23:59:04.737][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-10-15 23:59:04.738][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-10-15 23:59:04.740][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-10-15 23:59:04.741][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-10-15 23:59:04.743][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-10-15 23:59:04.744][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-10-15 23:59:04.746][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-10-15 23:59:04.747][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-10-15 23:59:04.749][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-10-15 23:59:04.751][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-10-15 23:59:04.753][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-10-15 23:59:04.756][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-10-15 23:59:04.758][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-10-15 23:59:04.760][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-10-15 23:59:04.762][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-10-15 23:59:04.765][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-10-15 23:59:04.767][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-10-15 23:59:04.769][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-10-15 23:59:04.772][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-10-15 23:59:04.774][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-10-15 23:59:04.777][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-10-15 23:59:04.779][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-10-15 23:59:04.781][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-10-15 23:59:04.784][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-10-15 23:59:04.786][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-10-15 23:59:04.789][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-10-15 23:59:04.791][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-10-15 23:59:04.793][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-10-15 23:59:04.795][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-10-15 23:59:04.797][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-10-15 23:59:04.799][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-10-15 23:59:04.833][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-10-15 23:59:04.836][initialize] This is biodb version 1.8.1.
biodb.DEBUG[2023-10-15 23:59:04.839][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-15 23:59:04.841][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:04.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:04.843][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.849][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:04.851][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:04.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:04.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:04.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.857][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:04.859][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:04.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:04.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:04.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.865][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:04.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:04.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:04.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:04.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.873][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:04.875][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:04.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:04.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:04.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.881][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:04.883][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:04.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:04.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:04.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.887][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.889][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:04.891][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:04.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:04.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:04.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.897][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:04.900][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:04.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:04.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:04.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.905][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:04.907][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:04.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:04.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:04.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.913][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:04.915][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:04.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:04.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:04.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.921][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:04.923][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:04.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:04.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:04.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.929][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:04.931][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:04.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:04.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:04.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:04.939][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:04.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:04.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:04.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.943][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.944][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:04.946][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:04.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:04.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:04.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.952][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:04.954][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:04.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:04.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:04.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.959][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[2023-10-15 23:59:04.960][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:04.962][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:04.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:04.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:04.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.966][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[2023-10-15 23:59:04.968][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:04.970][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:04.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:04.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:04.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.975][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:04.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:04.978][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:04.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:04.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:04.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:04.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:04.985][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.17-bioc/R/library/biodbLipidmaps/definitions.yml".
biodb.DEBUG[2023-10-15 23:59:04.994][self$getDbsInfo()$define] Define connector lipidmaps.structure.
biodb.DEBUG[2023-10-15 23:59:04.996][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:04.998][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-10-15 23:59:04.999][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:05.000][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 23:59:05.002][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:05.003][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 23:59:05.009][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:05.010][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 23:59:05.012][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-10-15 23:59:05.013][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 23:59:05.014][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:05.015][self$setPropertyValue] Setting property "name" to "LIPID MAPS Structure".
biodb.DEBUG[2023-10-15 23:59:05.017][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 23:59:05.018][self$setPropertyValue] Setting property "parsing.expr" to "LM_ID".
biodb.DEBUG[2023-10-15 23:59:05.018][self$setPropertyValue] Setting property "parsing.expr" to "CHEBI_ID".
biodb.DEBUG[2023-10-15 23:59:05.018][self$setPropertyValue] Setting property "parsing.expr" to "HMDBID".
biodb.DEBUG[2023-10-15 23:59:05.018][self$setPropertyValue] Setting property "parsing.expr" to "KEGG_ID".
biodb.DEBUG[2023-10-15 23:59:05.018][self$setPropertyValue] Setting property "parsing.expr" to "PUBCHEM_COMPOUND_ID".
biodb.DEBUG[2023-10-15 23:59:05.018][self$setPropertyValue] Setting property "parsing.expr" to "SYSTEMATIC_NAME".
biodb.DEBUG[2023-10-15 23:59:05.018][self$setPropertyValue] Setting property "parsing.expr" to "MASS".
biodb.DEBUG[2023-10-15 23:59:05.018][self$setPropertyValue] Setting property "parsing.expr" to "FORMULA".
biodb.DEBUG[2023-10-15 23:59:05.018][self$setPropertyValue] Setting property "parsing.expr" to "COMMON_NAME".
biodb.DEBUG[2023-10-15 23:59:05.019][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:05.020][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-15 23:59:05.020][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-15 23:59:05.022][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 23:59:05.023][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:59:05.024][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:59:05.025][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 23:59:05.026][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:59:05.027][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:59:05.028][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 23:59:05.030][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/data/".
biodb.DEBUG[2023-10-15 23:59:05.030][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/databases/lmsd/".
biodb.DEBUG[2023-10-15 23:59:05.031][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 23:59:05.032][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 23:59:05.033][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:05.034][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:05.040][self$getEntryFields()$define] Define field lipidmaps.structure.id.
biodb.DEBUG[2023-10-15 23:59:05.042][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-10-15 23:59:05.071][initialize] Initialize connector lipidmaps.structure.
biodb.DEBUG[2023-10-15 23:59:05.072][initialize] Register connector lipidmaps.structure with the request scheduler
biodb.DEBUG[2023-10-15 23:59:05.077][private$bdb$getRequestScheduler()$re ...] Register connector lipidmaps.structure.
biodb.DEBUG[2023-10-15 23:59:05.081][private$addConnectorRules] Create new rule for URL "www.lipidmaps.org" of connector "lipidmaps.structure".
biodb.DEBUG[2023-10-15 23:59:05.088][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2023-10-15 23:59:05.089][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2023-10-15 23:59:05.091][rule$addConnector] Connector "lipidmaps.structure" is already listed in rule "www.lipidmaps.org".
biodb.DEBUG[2023-10-15 23:59:05.092][biodb$getFactory()$createConn] Creating new connector lipidmaps.structure for database class lipidmaps.structure .
biodb.INFO [2023-10-15 23:59:05.103][biodb::testThat]
biodb.INFO [2023-10-15 23:59:05.104][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2023-10-15 23:59:05.105][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:59:05.106][biodb::testThat]
biodb.TRACE[2023-10-15 23:59:05.113][loadFileContents] Loaded 1 files from cache: [1]: "F:/biocbuild/bbs-3.17-bioc/R/library/biodbLipidmaps/testref/entry-lipidmaps.structure-LMFA00000001-content.tsv".
biodb.DEBUG[2023-10-15 23:59:05.115][biodb$getFactory()$createEntryFromCo ...] Creating LIPID MAPS Structure entries from 1 content(s).
biodb.DEBUG[2023-10-15 23:59:05.119][biodb$getFactory()$createEntryFromCo ...] Parsing 1 LIPID MAPS Structure entries.
biodb.DEBUG[2023-10-15 23:59:05.127][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:59:05.128][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:05.129][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:05.147][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:05.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:05.150][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:05.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:59:05.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:05.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:05.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.168][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:05.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:05.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.184][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:59:05.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:59:05.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.189][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-15 23:59:05.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-15 23:59:05.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.194][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:59:05.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:59:05.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.199][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:05.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:05.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.225][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:05.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:05.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.231][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:05.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:05.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.237][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:05.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:05.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.242][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-10-15 23:59:05.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:05.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.247][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-10-15 23:59:05.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:05.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.252][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:59:05.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:59:05.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.257][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:59:05.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:59:05.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.262][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:05.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:05.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.268][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:05.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:05.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.273][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-10-15 23:59:05.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:05.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.278][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2023-10-15 23:59:05.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:05.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.284][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:05.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:05.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.289][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:05.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:05.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.294][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-10-15 23:59:05.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:05.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.324][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:05.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:05.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.329][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:05.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:05.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.363][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:05.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:05.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.368][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:05.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:05.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.373][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:05.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:05.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.379][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:05.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:05.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.383][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:05.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:05.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:05.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:05.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.393][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:05.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:05.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:05.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:05.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:05.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:05.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.409][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:05.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:05.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:05.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:05.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.419][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:05.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:05.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:05.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:05.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:59:05.429][biodb$getFactory()$createEntryFromCo ...] Accession numbers: LMFA00000001.
biodb.TRACE[2023-10-15 23:59:05.434][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-15 23:59:05.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-15 23:59:05.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.439][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-15 23:59:05.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-15 23:59:05.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.444][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-10-15 23:59:05.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-10-15 23:59:05.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.449][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-10-15 23:59:05.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-10-15 23:59:05.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.475][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:05.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:05.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.495][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:05.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:05.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.507][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:05.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:05.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:05.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:05.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.517][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:05.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:05.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:05.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:05.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:05.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:05.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.534][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:05.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:05.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.539][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:05.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:05.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.544][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:05.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:05.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.555][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:05.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:05.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:05.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:05.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:05.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:05.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:05.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:05.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.588][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:05.590][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:05.591][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.592][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.593][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:05.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:05.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.611][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:05.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:05.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.616][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:05.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:05.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.621][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:05.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:05.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.626][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:05.627][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:05.628][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.630][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.631][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:05.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:05.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.647][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:05.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:05.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.653][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:05.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:05.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.658][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:05.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:05.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.664][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:05.665][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:05.667][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.668][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.669][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:05.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:05.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.686][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:59:05.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:59:05.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.692][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:59:05.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:59:05.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.697][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:59:05.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:59:05.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.703][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:59:05.704][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:59:05.705][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.707][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.708][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:59:05.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:59:05.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.725][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:05.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:05.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.731][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:05.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:05.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.738][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:05.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:05.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.743][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:05.744][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:05.746][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.747][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.748][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:05.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:05.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.770][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:05.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:05.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.778][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:05.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:05.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.783][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:05.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:05.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.788][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:05.790][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:05.791][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.792][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.794][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:05.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:05.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.810][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:05.811][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:05.813][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.814][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.821][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:05.823][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:05.824][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.825][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.833][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:59:05.834][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:59:05.866][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.868][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.877][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:05.879][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:05.881][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.882][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.891][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:05.892][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:05.894][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.895][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:05.905][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:05.906][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:05.908][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:05.909][ef$get] fields variable is a list.
biodb.INFO [2023-10-15 23:59:05.924][biodb::testThat]
biodb.INFO [2023-10-15 23:59:05.925][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2023-10-15 23:59:05.927][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:59:05.928][biodb::testThat]
biodb.DEBUG[2023-10-15 23:59:05.947][private$loadEntries] Creating entries from ids [1]: "LMFA00000001".
biodb.DEBUG[2023-10-15 23:59:05.954][conn$getEntryContent] Get LIPID MAPS Structure entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 23:59:05.961][cch$loadFileContent] Trying to load 1 files from cache: [1]: "LMFA00000001".
biodb.TRACE[2023-10-15 23:59:05.962][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:59:05.966][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA00000001.tsv".
biodb.DEBUG[2023-10-15 23:59:05.968][conn$getEntryContent] 1 LIPID MAPS Structure entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 23:59:05.990][self$createEntryFromContent] Creating LIPID MAPS Structure entries from 1 content(s).
biodb.DEBUG[2023-10-15 23:59:05.992][self$createEntryFromContent] Parsing 1 LIPID MAPS Structure entries.
biodb.DEBUG[2023-10-15 23:59:05.994][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:59:05.996][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:05.997][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:06.006][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:06.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:06.008][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:06.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:59:06.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:06.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:06.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:06.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:06.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.026][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:59:06.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:59:06.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.032][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:59:06.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:59:06.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.038][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-15 23:59:06.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-15 23:59:06.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.044][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:59:06.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:59:06.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.050][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:06.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:06.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.057][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:06.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:06.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.063][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:06.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:06.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.070][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:06.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:06.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.076][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-10-15 23:59:06.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:06.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.083][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-10-15 23:59:06.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:06.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.090][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:59:06.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:59:06.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.096][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:59:06.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:59:06.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.102][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:06.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:06.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.107][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:06.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:06.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.113][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-10-15 23:59:06.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:06.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.119][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2023-10-15 23:59:06.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:06.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.126][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:06.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:06.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.132][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:06.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:06.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.138][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-10-15 23:59:06.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:06.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.143][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:06.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:06.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.155][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:06.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:06.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.161][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:06.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:06.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.165][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:06.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:06.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.170][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:06.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:06.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.176][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:06.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:06.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.181][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:06.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:06.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.186][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:06.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:06.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.191][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:06.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:06.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.196][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:06.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:06.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:06.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:06.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:06.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:06.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.216][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:06.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:06.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.224][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:06.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:06.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.232][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:06.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:06.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:59:06.241][self$createEntryFromContent] Accession numbers: LMFA00000001.
biodb.TRACE[2023-10-15 23:59:06.243][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2023-10-15 23:59:06.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2023-10-15 23:59:06.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.251][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2023-10-15 23:59:06.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2023-10-15 23:59:06.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.259][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2023-10-15 23:59:06.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2023-10-15 23:59:06.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-10-15 23:59:06.280][biodb::testThat]
biodb.INFO [2023-10-15 23:59:06.282][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2023-10-15 23:59:06.283][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:59:06.285][biodb::testThat]
biodb.TRACE[2023-10-15 23:59:06.291][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:06.293][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:06.295][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.297][ef$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:59:06.300][function(conn, opt)] Testing searchForEntries() with entry "LMFA00000001" and field "name".
biodb.TRACE[2023-10-15 23:59:06.351][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:06.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:06.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.359][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:06.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:06.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.367][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:06.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:06.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:59:06.380][function(conn, opt)] With value "2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride".
biodb.DEBUG[2023-10-15 23:59:06.388][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[2023-10-15 23:59:06.418][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:59:06.433][cch$loadFileContent] Trying to load 1 files from cache: [1]: "e8702bf6dc5a5afd048f747914fd7a6a".
biodb.TRACE[2023-10-15 23:59:06.435][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:59:06.447][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.content".
biodb.DEBUG[2023-10-15 23:59:06.450][function(conn, opt)] With found IDs [1]: "LMFA00000001".
biodb.TRACE[2023-10-15 23:59:06.475][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:06.477][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:06.478][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.479][ef$get] fields variable is a list.
biodb.INFO [2023-10-15 23:59:06.487][biodb::testThat]
biodb.INFO [2023-10-15 23:59:06.488][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2023-10-15 23:59:06.489][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:59:06.491][biodb::testThat]
biodb.TRACE[2023-10-15 23:59:06.521][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:06.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:06.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.527][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:06.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:06.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.533][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:06.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:06.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:59:06.635][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[2023-10-15 23:59:06.638][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:59:06.640][cch$loadFileContent] Trying to load 1 files from cache: [1]: "e8702bf6dc5a5afd048f747914fd7a6a".
biodb.TRACE[2023-10-15 23:59:06.642][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:59:06.644][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.content".
biodb.INFO [2023-10-15 23:59:06.677][biodb::testThat]
biodb.INFO [2023-10-15 23:59:06.678][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2023-10-15 23:59:06.680][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:59:06.681][biodb::testThat]
biodb.TRACE[2023-10-15 23:59:06.705][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-15 23:59:06.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-15 23:59:06.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.710][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-15 23:59:06.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-15 23:59:06.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.716][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-10-15 23:59:06.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-10-15 23:59:06.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.721][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-10-15 23:59:06.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-10-15 23:59:06.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.776][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-15 23:59:06.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-15 23:59:06.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.782][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-15 23:59:06.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-15 23:59:06.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.788][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-10-15 23:59:06.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-10-15 23:59:06.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:06.793][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-10-15 23:59:06.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-10-15 23:59:06.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:06.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-10-15 23:59:06.807][biodb::testThat]
biodb.INFO [2023-10-15 23:59:06.808][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2023-10-15 23:59:06.809][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:59:06.810][biodb::testThat]
biodb.INFO [2023-10-15 23:59:06.823][biodb::testThat]
biodb.INFO [2023-10-15 23:59:06.824][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2023-10-15 23:59:06.825][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:59:06.826][biodb::testThat]
biodb.INFO [2023-10-15 23:59:06.839][biodb::testThat]
biodb.INFO [2023-10-15 23:59:06.840][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2023-10-15 23:59:06.842][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:59:06.843][biodb::testThat]
biodb.DEBUG[2023-10-15 23:59:06.848][function(conn, opt)] Trying to download "https://www.lipidmaps.org/data?LMID=LMFA00000001".
biodb.DEBUG[2023-10-15 23:59:07.636][getUrlContent] Use base::url() for downloading content of URL https://www.lipidmaps.org/data?LMID=LMFA00000001.
biodb.INFO [2023-10-15 23:59:08.424][biodb::testThat]
biodb.INFO [2023-10-15 23:59:08.425][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2023-10-15 23:59:08.427][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:59:08.429][biodb::testThat]
biodb.TRACE[2023-10-15 23:59:08.443][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:08.445][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:08.447][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:08.449][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:08.451][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:08.453][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:08.454][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:08.456][ef$get] fields variable is a list.
biodb.INFO [2023-10-15 23:59:08.460][biodb::testThat]
biodb.INFO [2023-10-15 23:59:08.461][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2023-10-15 23:59:08.463][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:59:08.465][biodb::testThat]
biodb.TRACE[2023-10-15 23:59:08.490][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:08.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:08.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:08.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:08.498][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:08.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:08.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:08.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:08.505][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:08.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:08.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:08.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:59:08.615][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[2023-10-15 23:59:08.619][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:59:08.622][cch$loadFileContent] Trying to load 1 files from cache: [1]: "e8702bf6dc5a5afd048f747914fd7a6a".
biodb.TRACE[2023-10-15 23:59:08.625][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:59:08.628][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.content".
biodb.DEBUG[2023-10-15 23:59:08.728][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[2023-10-15 23:59:08.732][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:59:08.733][cch$loadFileContent] Trying to load 1 files from cache: [1]: "e8702bf6dc5a5afd048f747914fd7a6a".
biodb.TRACE[2023-10-15 23:59:08.735][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:59:08.737][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.content".
biodb.TRACE[2023-10-15 23:59:08.765][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-15 23:59:08.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-15 23:59:08.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:08.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:08.781][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:59:08.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:59:08.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:08.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:08.796][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:08.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:08.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:08.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:08.802][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:08.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:08.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:08.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:08.809][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:08.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:08.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:08.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:08.820][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:08.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:08.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:08.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:08.825][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:08.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:08.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:08.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:59:08.838][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[2023-10-15 23:59:08.842][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:59:08.844][cch$loadFileContent] Trying to load 1 files from cache: [1]: "304383a7dc8c451be84009e31d831359".
biodb.TRACE[2023-10-15 23:59:08.845][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:59:09.183][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/304383a7dc8c451be84009e31d831359.content".
biodb.DEBUG[2023-10-15 23:59:10.977][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.lipidmaps.org/data/structure/LMSDSearch.php?Mode=ProcessStrSearch&OutputMode=File&OutputType=TSV&Name=2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride&ExactMass=626.491025&ExactMassOffSet=1e-06".
biodb.DEBUG[2023-10-15 23:59:10.982][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:59:10.984][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7f71825f1888a7b29e4b8407502d21e3".
biodb.TRACE[2023-10-15 23:59:10.985][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:59:10.989][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/7f71825f1888a7b29e4b8407502d21e3.content".
biodb.DEBUG[2023-10-15 23:59:11.022][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[2023-10-15 23:59:11.026][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:59:11.027][cch$loadFileContent] Trying to load 1 files from cache: [1]: "fd41c675dd237f33cdaafcbb15058c54".
biodb.TRACE[2023-10-15 23:59:11.029][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:59:11.032][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/fd41c675dd237f33cdaafcbb15058c54.content".
biodb.TRACE[2023-10-15 23:59:11.059][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-10-15 23:59:11.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-10-15 23:59:11.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:11.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-10-15 23:59:11.077][biodb::testThat]
biodb.INFO [2023-10-15 23:59:11.078][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2023-10-15 23:59:11.079][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:59:11.080][biodb::testThat]
biodb.TRACE[2023-10-15 23:59:11.085][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-15 23:59:11.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-15 23:59:11.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:11.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:11.090][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:59:11.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:59:11.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:11.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:11.095][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:11.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:11.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:11.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:11.100][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:11.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:11.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:11.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:11.105][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:11.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:11.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:11.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:11.110][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:11.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:11.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:11.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:59:11.118][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:59:11.119][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:11.153][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:11.161][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:11.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:11.164][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:11.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:11.169][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[2023-10-15 23:59:11.172][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:59:11.174][cch$loadFileContent] Trying to load 1 files from cache: [1]: "f4acf835cb23946f08f684530aa686a3".
biodb.TRACE[2023-10-15 23:59:11.176][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:59:11.492][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f4acf835cb23946f08f684530aa686a3.content".
biodb.DEBUG[2023-10-15 23:59:13.188][private$loadEntries] Creating entries from ids [2]: "LMFA00000002, LMFA00000003".
biodb.DEBUG[2023-10-15 23:59:13.227][conn$getEntryContent] Get LIPID MAPS Structure entry content(s) for 2 id(s)...
biodb.TRACE[2023-10-15 23:59:13.230][cch$loadFileContent] Trying to load 2 files from cache: [2]: "LMFA00000002, LMFA00000003".
biodb.TRACE[2023-10-15 23:59:13.232][cch$loadFileContent] file.exist = [2]: "TRUE, TRUE".
biodb.TRACE[2023-10-15 23:59:13.267][loadFileContents] Loaded 2 files from cache: [2]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA00000002.tsv, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA00000003.tsv".
biodb.DEBUG[2023-10-15 23:59:13.270][conn$getEntryContent] 2 LIPID MAPS Structure entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 23:59:13.272][self$createEntryFromContent] Creating LIPID MAPS Structure entries from 2 content(s).
biodb.DEBUG[2023-10-15 23:59:13.275][self$createEntryFromContent] Parsing 2 LIPID MAPS Structure entries.
biodb.DEBUG[2023-10-15 23:59:13.278][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:59:13.280][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:13.282][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:13.295][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:13.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:13.299][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:13.301][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:59:13.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:13.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:13.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:13.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:13.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.326][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:59:13.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:59:13.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.334][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:59:13.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:59:13.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.343][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-15 23:59:13.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-15 23:59:13.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.350][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:59:13.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:59:13.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.358][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:13.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:13.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.366][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:13.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:13.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.374][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:13.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:13.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.382][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:13.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:13.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.390][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-10-15 23:59:13.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:13.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.398][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-10-15 23:59:13.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:13.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.406][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:59:13.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:59:13.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.414][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:59:13.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:59:13.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.423][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:13.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:13.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.431][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:13.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:13.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.440][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-10-15 23:59:13.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:13.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.448][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2023-10-15 23:59:13.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:13.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.456][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:13.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:13.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.464][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:13.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:13.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.473][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-10-15 23:59:13.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:13.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.482][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:13.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:13.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.490][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:13.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:13.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:13.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:13.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.507][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:13.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:13.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:13.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:13.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:13.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:13.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:13.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:13.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:59:13.541][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:59:13.543][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:13.545][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:13.559][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:13.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:13.564][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:13.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:59:13.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:13.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:13.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:13.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:13.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.592][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:59:13.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:59:13.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.601][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-15 23:59:13.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-15 23:59:13.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.610][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:59:13.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:59:13.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.618][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:13.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:13.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.627][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:13.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:13.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.636][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:13.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:13.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.645][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:13.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:13.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.654][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-10-15 23:59:13.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:13.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.663][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-10-15 23:59:13.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:13.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.672][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:59:13.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:59:13.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.702][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:59:13.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:59:13.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.711][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:13.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:13.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.720][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:13.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:13.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.728][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-10-15 23:59:13.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:13.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.736][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2023-10-15 23:59:13.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:13.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.744][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:13.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:13.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.752][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:13.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:13.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.761][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-10-15 23:59:13.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:13.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.769][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:13.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:13.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.777][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:13.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:13.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.785][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:13.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:13.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.791][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:13.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:13.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.797][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:13.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:13.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.804][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:13.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:13.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:13.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:13.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:13.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:13.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.822][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:13.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:13.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.829][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:13.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:13.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.835][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:13.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:13.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:13.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:13.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:13.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:13.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:59:13.854][self$createEntryFromContent] Accession numbers: LMFA00000002, LMFA00000003.
biodb.DEBUG[2023-10-15 23:59:13.865][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-15 23:59:13.868][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:59:13.869][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:13.871][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:13.880][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:13.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:13.883][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:13.885][FUN] Functions in observer BiodbConfig: [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[2023-10-15 23:59:13.887][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:13.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:13.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.893][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:13.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:13.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.899][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:13.901][private$selectFields]
biodb.TRACE[2023-10-15 23:59:13.903][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 23:59:13.904][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 23:59:13.906][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:13.907][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:13.909][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:13.910][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.912][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.913][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:13.915][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:13.917][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.918][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.920][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:13.921][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:13.923][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:13.924][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:13.926][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.927][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.929][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-15 23:59:13.931][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:13.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:13.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.937][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:13.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:13.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.943][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:13.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:13.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.960][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2023-10-15 23:59:13.962][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:59:13.963][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:13.965][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:13.974][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:13.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:13.977][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:13.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:59:13.981][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:13.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:13.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.987][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:13.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:13.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:13.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:13.995][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:13.997][private$selectFields]
biodb.TRACE[2023-10-15 23:59:13.999][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 23:59:14.001][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 23:59:14.003][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:14.005][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:14.008][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:14.010][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:14.012][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:14.014][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:14.016][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:14.018][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:14.020][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:14.022][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:14.023][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:14.025][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:14.027][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:14.028][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:14.030][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:14.031][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-15 23:59:14.033][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:14.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:14.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:14.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:14.039][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:14.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:14.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:14.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:14.046][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:14.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:14.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:14.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:14.052][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2023-10-15 23:59:14.054][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:59:14.055][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:14.057][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:14.067][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:14.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:14.069][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:14.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:59:14.073][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:14.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:14.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:14.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:14.080][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:14.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:14.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:14.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:14.086][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:14.087][private$selectFields]
biodb.TRACE[2023-10-15 23:59:14.089][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 23:59:14.090][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 23:59:14.091][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:14.092][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:14.094][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:14.095][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:14.096][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:14.097][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:14.099][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:14.101][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:14.103][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:14.105][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:14.107][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:14.109][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:14.110][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:14.112][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:14.114][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:14.115][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-15 23:59:14.117][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:14.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:14.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:14.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:14.122][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:14.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:14.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:14.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:14.137][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:14.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:14.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:14.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:14.144][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2023-10-15 23:59:14.146][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-15 23:59:14.147][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-10-15 23:59:14.162][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-10-15 23:59:14.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-10-15 23:59:14.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:14.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-10-15 23:59:14.173][biodb::testThat]
biodb.INFO [2023-10-15 23:59:14.174][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2023-10-15 23:59:14.176][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:59:14.177][biodb::testThat]
biodb.TRACE[2023-10-15 23:59:14.181][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-15 23:59:14.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-15 23:59:14.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:14.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:14.186][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:59:14.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:59:14.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:14.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:14.194][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:14.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:14.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:14.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:14.202][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:14.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:14.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:14.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:14.211][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:14.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:14.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:14.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:14.216][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:14.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:14.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:14.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:59:14.282][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:59:14.283][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:14.284][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:14.292][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:14.293][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:14.294][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:14.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:14.301][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[2023-10-15 23:59:14.308][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:59:14.310][cch$loadFileContent] Trying to load 1 files from cache: [1]: "5652f5994fce967a05a065a71bac3ed6".
biodb.TRACE[2023-10-15 23:59:14.313][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:59:14.644][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/5652f5994fce967a05a065a71bac3ed6.content".
biodb.DEBUG[2023-10-15 23:59:16.510][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-15 23:59:16.532][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:59:16.533][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:16.535][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:16.544][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:16.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:16.547][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:16.548][FUN] Functions in observer BiodbConfig: [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[2023-10-15 23:59:16.560][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:16.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:16.565][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:16.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:16.587][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:16.589][private$selectFields]
biodb.TRACE[2023-10-15 23:59:16.590][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 23:59:16.591][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 23:59:16.592][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:16.594][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.595][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.596][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:16.597][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:16.599][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.600][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.601][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:16.602][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:16.604][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:16.614][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:16.615][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.617][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.618][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:16.619][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:16.621][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-15 23:59:16.622][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:16.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:16.627][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:16.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:16.632][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:16.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:16.637][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2023-10-15 23:59:16.639][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:59:16.640][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:16.641][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:16.649][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:16.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:16.651][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:16.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:59:16.654][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:16.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:16.659][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:16.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:16.666][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:16.667][private$selectFields]
biodb.TRACE[2023-10-15 23:59:16.668][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 23:59:16.669][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 23:59:16.670][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:16.672][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.673][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.674][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:16.675][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:16.677][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.678][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.679][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:16.680][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:16.681][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:16.683][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:16.684][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.686][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.687][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:16.688][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:16.689][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-15 23:59:16.690][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:16.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:16.696][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:16.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:16.700][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:16.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:16.706][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2023-10-15 23:59:16.708][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:59:16.709][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:16.710][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:16.718][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:16.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:16.721][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:16.722][FUN] Functions in observer BiodbConfig: [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[2023-10-15 23:59:16.724][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:16.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:16.729][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:16.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:16.734][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:16.735][private$selectFields]
biodb.TRACE[2023-10-15 23:59:16.737][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 23:59:16.738][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 23:59:16.739][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:16.740][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.741][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.743][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:16.744][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:16.746][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.748][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.751][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:16.753][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:16.755][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:16.758][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:16.760][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.762][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.764][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:16.766][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:16.768][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-15 23:59:16.803][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:16.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:16.812][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:16.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:16.819][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:16.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:16.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:16.828][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2023-10-15 23:59:16.829][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-15 23:59:16.831][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-10-15 23:59:16.849][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-10-15 23:59:16.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-10-15 23:59:16.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:16.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-10-15 23:59:16.868][biodb::testThat]
biodb.INFO [2023-10-15 23:59:16.871][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2023-10-15 23:59:16.873][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:59:16.876][biodb::testThat]
biodb.TRACE[2023-10-15 23:59:16.884][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-15 23:59:16.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-15 23:59:16.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:16.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:16.893][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-10-15 23:59:16.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-10-15 23:59:16.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:16.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:16.902][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:16.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:16.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:16.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:16.910][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:16.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:16.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:16.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:16.918][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:16.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:16.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:16.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:16.926][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:16.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:16.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:16.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:59:16.941][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:59:16.943][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:16.944][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:16.957][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:16.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:16.961][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:16.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:16.969][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[2023-10-15 23:59:16.975][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:59:16.978][cch$loadFileContent] Trying to load 1 files from cache: [1]: "f4acf835cb23946f08f684530aa686a3".
biodb.TRACE[2023-10-15 23:59:16.980][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:59:17.160][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f4acf835cb23946f08f684530aa686a3.content".
biodb.DEBUG[2023-10-15 23:59:18.812][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-15 23:59:18.815][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:59:18.816][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:18.818][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:18.829][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:18.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:18.832][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:18.834][FUN] Functions in observer BiodbConfig: [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[2023-10-15 23:59:18.837][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:18.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:18.845][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:18.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:18.854][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:18.856][private$selectFields]
biodb.TRACE[2023-10-15 23:59:18.857][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 23:59:18.859][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 23:59:18.861][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:18.863][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.864][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.866][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:18.867][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:18.868][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.869][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.871][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:18.872][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:18.873][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:18.874][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:18.875][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.877][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.878][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:18.879][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:18.880][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-15 23:59:18.881][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:18.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:18.886][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:18.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:18.891][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:18.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:18.896][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2023-10-15 23:59:18.897][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:59:18.899][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:18.900][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:18.907][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:18.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:18.910][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:18.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:59:18.912][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:18.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:18.917][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:18.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:18.922][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:18.923][private$selectFields]
biodb.TRACE[2023-10-15 23:59:18.924][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 23:59:18.925][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 23:59:18.926][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:18.928][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.929][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.930][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:18.931][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:18.932][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.934][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.935][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:18.936][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:18.937][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:18.938][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:18.939][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.941][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.942][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:18.943][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:18.944][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-15 23:59:18.945][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:18.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:18.950][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:18.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:18.955][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:18.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:18.960][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2023-10-15 23:59:18.962][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:59:18.963][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:18.964][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:18.972][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:18.973][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:18.974][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:18.975][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.TRACE[2023-10-15 23:59:18.976][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:18.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:18.981][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:18.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:18.986][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:18.987][private$selectFields]
biodb.TRACE[2023-10-15 23:59:18.989][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-10-15 23:59:18.990][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 23:59:18.991][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:18.992][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.994][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.995][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:18.996][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:18.997][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:18.999][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:19.000][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.001][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.003][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:19.004][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:19.005][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:19.007][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:19.008][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.009][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.010][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-10-15 23:59:19.012][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:19.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:19.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.016][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:19.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:19.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.021][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:19.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:19.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.026][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2023-10-15 23:59:19.028][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-10-15 23:59:19.029][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-10-15 23:59:19.058][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-10-15 23:59:19.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-10-15 23:59:19.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-10-15 23:59:19.070][biodb::testThat]
biodb.INFO [2023-10-15 23:59:19.071][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2023-10-15 23:59:19.072][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:59:19.073][biodb::testThat]
biodb.DEBUG[2023-10-15 23:59:19.076][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2023-10-15 23:59:19.077][conn$getEntryContent] Get LIPID MAPS Structure entry content(s) for 1 id(s)...
biodb.TRACE[2023-10-15 23:59:19.079][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2023-10-15 23:59:19.081][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:59:19.085][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/WRONGA.tsv".
biodb.DEBUG[2023-10-15 23:59:19.087][conn$getEntryContent] 1 LIPID MAPS Structure entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 23:59:19.089][self$createEntryFromContent] Creating LIPID MAPS Structure entries from 1 content(s).
biodb.DEBUG[2023-10-15 23:59:19.091][self$createEntryFromContent] Parsing 1 LIPID MAPS Structure entries.
biodb.DEBUG[2023-10-15 23:59:19.093][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:59:19.094][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:19.096][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:19.103][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:19.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:19.106][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:19.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:59:19.109][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:19.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:19.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.114][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:19.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:19.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.119][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:19.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:19.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:19.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:19.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:19.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:19.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.134][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:19.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:19.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.139][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:19.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:19.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:19.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:19.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:59:19.149][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2023-10-15 23:59:19.150][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2023-10-15 23:59:19.178][biodb::testThat]
biodb.INFO [2023-10-15 23:59:19.179][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2023-10-15 23:59:19.181][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:59:19.182][biodb::testThat]
biodb.DEBUG[2023-10-15 23:59:19.194][function(conn, opt)] IDS: [4]: "WRONGB, LMFA00000001, LMFA00000002, LMFA08040013"
biodb.DEBUG[2023-10-15 23:59:19.197][private$loadEntries] Creating entries from ids [2]: "WRONGB, LMFA08040013".
biodb.DEBUG[2023-10-15 23:59:19.198][conn$getEntryContent] Get LIPID MAPS Structure entry content(s) for 2 id(s)...
biodb.TRACE[2023-10-15 23:59:19.200][cch$loadFileContent] Trying to load 2 files from cache: [2]: "WRONGB, LMFA08040013".
biodb.TRACE[2023-10-15 23:59:19.202][cch$loadFileContent] file.exist = [2]: "TRUE, TRUE".
biodb.TRACE[2023-10-15 23:59:19.216][loadFileContents] Loaded 2 files from cache: [2]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/WRONGB.tsv, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA08040013.tsv".
biodb.DEBUG[2023-10-15 23:59:19.218][conn$getEntryContent] 2 LIPID MAPS Structure entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 23:59:19.219][self$createEntryFromContent] Creating LIPID MAPS Structure entries from 2 content(s).
biodb.DEBUG[2023-10-15 23:59:19.221][self$createEntryFromContent] Parsing 2 LIPID MAPS Structure entries.
biodb.DEBUG[2023-10-15 23:59:19.223][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:59:19.224][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:19.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:19.233][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:19.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:19.235][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:19.236][FUN] Functions in observer BiodbConfig: [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[2023-10-15 23:59:19.238][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:19.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:19.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.243][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:19.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:19.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:19.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:19.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:59:19.253][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:59:19.254][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:19.255][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:19.264][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:19.265][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:19.266][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:19.267][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.TRACE[2023-10-15 23:59:19.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:19.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:19.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:19.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:19.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.283][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:59:19.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:59:19.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.288][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:59:19.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:59:19.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.294][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-15 23:59:19.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-15 23:59:19.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.299][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-15 23:59:19.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-15 23:59:19.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.304][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:59:19.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:59:19.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.309][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:59:19.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:59:19.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.314][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:19.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:19.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.320][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:19.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:19.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.325][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:19.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:19.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.330][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:19.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:19.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.335][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-10-15 23:59:19.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:19.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.340][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-10-15 23:59:19.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:19.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.345][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:59:19.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:59:19.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.350][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:59:19.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:59:19.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.355][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:19.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:19.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.360][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:19.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:19.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.365][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-10-15 23:59:19.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:19.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.370][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2023-10-15 23:59:19.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:19.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.375][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:19.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:19.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.380][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:19.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:19.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.385][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-10-15 23:59:19.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:19.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.390][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:19.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:19.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.395][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:19.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:19.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.399][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:19.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:19.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.406][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:19.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:19.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.410][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:19.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:19.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.416][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:19.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:19.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.420][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:19.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:19.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.425][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:19.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:19.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.430][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:19.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:19.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.435][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:19.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:19.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.440][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:19.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:19.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.445][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:19.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:19.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:19.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:19.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.454][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:19.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:19.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.459][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:19.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:19.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.464][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:19.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:19.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.469][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:19.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:19.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:19.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:19.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.480][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:19.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:19.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:19.485][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:19.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:19.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:19.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:59:19.490][self$createEntryFromContent] Accession numbers: NA, LMFA08040013.
biodb.DEBUG[2023-10-15 23:59:19.491][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2023-10-15 23:59:19.492][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2023-10-15 23:59:19.514][biodb::testThat]
biodb.INFO [2023-10-15 23:59:19.515][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2023-10-15 23:59:19.517][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:59:19.518][biodb::testThat]
biodb.INFO [2023-10-15 23:59:19.563][biodb::testThat]
biodb.INFO [2023-10-15 23:59:19.565][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2023-10-15 23:59:19.566][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:59:19.568][biodb::testThat]
biodb.INFO [2023-10-15 23:59:19.586][biodb::testThat]
biodb.INFO [2023-10-15 23:59:19.588][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2023-10-15 23:59:19.589][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:59:19.590][biodb::testThat]
biodb.DEBUG[2023-10-15 23:59:19.594][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[2023-10-15 23:59:19.598][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:59:19.600][cch$loadFileContent] Trying to load 1 files from cache: [1]: "13e15253cf65619ae7a700f5534f6030".
biodb.TRACE[2023-10-15 23:59:19.602][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:59:19.911][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/13e15253cf65619ae7a700f5534f6030.content".
biodb.TRACE[2023-10-15 23:59:21.289][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:21.291][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:21.292][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:21.293][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:21.294][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:21.296][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:21.297][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:21.298][ef$get] fields variable is a list.
biodb.INFO [2023-10-15 23:59:21.300][biodb::testThat]
biodb.INFO [2023-10-15 23:59:21.302][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2023-10-15 23:59:21.303][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:59:21.304][biodb::testThat]
biodb.ERROR[2023-10-15 23:59:21.322][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2023-10-15 23:59:21.339][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2023-10-15 23:59:21.355][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-10-15 23:59:21.357][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector lipidmaps.structure from the request scheduler
biodb.INFO [2023-10-15 23:59:21.359][self$deleteConn] Connector "lipidmaps.structure" deleted.
biodb.DEBUG[2023-10-15 23:59:21.360][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-10-15 23:59:21.361][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:21.362][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:21.363][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:21.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:21.365][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.366][FUN] Functions in observer BiodbConfig: [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 [2023-10-15 23:59:21.377][biodb::testContext]
biodb.INFO [2023-10-15 23:59:21.378][biodb::testContext] ********************************************************************************
biodb.INFO [2023-10-15 23:59:21.380][biodb::testContext] Test context - Web services tests
biodb.INFO [2023-10-15 23:59:21.381][biodb::testContext] ********************************************************************************
biodb.INFO [2023-10-15 23:59:21.382][biodb::testContext]
biodb.INFO [2023-10-15 23:59:21.385][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.8.1.
biodb.DEBUG[2023-10-15 23:59:21.387][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.17-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2023-10-15 23:59:21.393][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-15 23:59:21.394][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-10-15 23:59:21.396][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-10-15 23:59:21.397][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.400][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-10-15 23:59:21.401][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-10-15 23:59:21.403][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.406][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-10-15 23:59:21.407][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-10-15 23:59:21.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.412][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-10-15 23:59:21.413][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-10-15 23:59:21.414][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-10-15 23:59:21.415][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.419][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-10-15 23:59:21.420][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-10-15 23:59:21.421][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-10-15 23:59:21.423][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.425][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.426][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-10-15 23:59:21.427][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-10-15 23:59:21.428][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.432][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-10-15 23:59:21.433][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-10-15 23:59:21.434][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-10-15 23:59:21.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.439][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-10-15 23:59:21.440][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-10-15 23:59:21.441][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.443][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.444][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-10-15 23:59:21.446][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-10-15 23:59:21.447][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-10-15 23:59:21.448][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.452][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-10-15 23:59:21.453][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-10-15 23:59:21.454][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-10-15 23:59:21.455][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-10-15 23:59:21.456][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-10-15 23:59:21.458][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-10-15 23:59:21.459][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.462][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-10-15 23:59:21.464][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-10-15 23:59:21.465][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.468][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-10-15 23:59:21.469][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-10-15 23:59:21.470][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.474][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-10-15 23:59:21.475][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-10-15 23:59:21.476][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.479][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-10-15 23:59:21.481][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-10-15 23:59:21.482][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.485][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-10-15 23:59:21.487][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-10-15 23:59:21.488][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.491][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-10-15 23:59:21.492][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-10-15 23:59:21.496][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-10-15 23:59:21.497][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.501][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-10-15 23:59:21.502][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-10-15 23:59:21.503][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-10-15 23:59:21.504][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.508][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-10-15 23:59:21.510][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:21.512][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-10-15 23:59:21.513][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:21.514][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 23:59:21.515][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:21.516][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 23:59:21.518][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:21.519][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 23:59:21.520][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-10-15 23:59:21.521][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 23:59:21.522][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:21.524][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-10-15 23:59:21.525][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 23:59:21.526][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:21.527][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:21.528][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-15 23:59:21.528][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-15 23:59:21.528][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-15 23:59:21.528][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-10-15 23:59:21.528][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-10-15 23:59:21.530][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 23:59:21.531][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:59:21.532][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:59:21.533][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 23:59:21.534][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:59:21.535][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:59:21.536][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 23:59:21.538][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:21.539][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 23:59:21.540][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 23:59:21.541][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:21.542][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:21.544][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-10-15 23:59:21.546][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:21.547][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-10-15 23:59:21.548][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:21.549][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 23:59:21.550][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:21.552][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 23:59:21.553][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:21.554][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 23:59:21.555][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-10-15 23:59:21.556][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 23:59:21.558][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:21.559][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-10-15 23:59:21.560][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 23:59:21.561][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:21.563][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:21.564][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-15 23:59:21.564][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-15 23:59:21.564][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-15 23:59:21.564][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-10-15 23:59:21.564][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-10-15 23:59:21.565][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 23:59:21.566][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:59:21.567][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:59:21.568][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 23:59:21.570][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:59:21.571][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:59:21.572][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 23:59:21.573][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:21.574][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 23:59:21.576][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 23:59:21.577][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:21.578][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:21.579][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-10-15 23:59:21.581][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:21.583][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-10-15 23:59:21.584][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:21.585][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 23:59:21.586][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:21.587][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 23:59:21.589][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:21.590][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 23:59:21.605][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-10-15 23:59:21.606][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 23:59:21.608][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:21.609][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-10-15 23:59:21.610][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 23:59:21.611][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:21.612][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:21.614][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:21.615][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 23:59:21.616][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:59:21.617][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:59:21.618][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 23:59:21.619][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:59:21.621][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:59:21.622][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 23:59:21.623][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:21.624][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 23:59:21.625][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 23:59:21.627][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:21.628][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:21.629][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-10-15 23:59:21.631][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:21.632][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-10-15 23:59:21.634][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:21.635][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 23:59:21.636][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:21.637][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 23:59:21.638][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:21.640][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 23:59:21.641][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-10-15 23:59:21.642][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 23:59:21.643][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:21.644][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-10-15 23:59:21.645][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 23:59:21.647][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:21.648][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:21.649][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:21.650][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 23:59:21.651][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:59:21.652][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:59:21.654][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 23:59:21.655][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:59:21.656][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:59:21.657][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 23:59:21.658][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:21.659][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 23:59:21.660][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 23:59:21.662][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:21.663][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:21.664][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-15 23:59:21.665][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.666][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[2023-10-15 23:59:21.667][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:21.670][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:21.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.672][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[2023-10-15 23:59:21.673][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:21.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:21.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.677][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[2023-10-15 23:59:21.678][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:21.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:21.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:21.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:21.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.689][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:21.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:21.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.694][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:21.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:21.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.700][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:21.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:21.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.705][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:21.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:21.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.710][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[2023-10-15 23:59:21.711][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:21.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:21.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.715][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[2023-10-15 23:59:21.716][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:21.718][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:21.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.721][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:21.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:21.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.727][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:21.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:21.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.733][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:21.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:21.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.739][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:21.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:21.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.744][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:21.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:21.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.748][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[2023-10-15 23:59:21.750][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:21.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:21.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.754][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[2023-10-15 23:59:21.755][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:21.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:21.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.761][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-10-15 23:59:21.762][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-10-15 23:59:21.764][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-10-15 23:59:21.765][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-10-15 23:59:21.767][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-10-15 23:59:21.769][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-10-15 23:59:21.770][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-10-15 23:59:21.772][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-10-15 23:59:21.773][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-10-15 23:59:21.775][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-10-15 23:59:21.776][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-10-15 23:59:21.778][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-10-15 23:59:21.779][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-10-15 23:59:21.781][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-10-15 23:59:21.782][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-10-15 23:59:21.784][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-10-15 23:59:21.786][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-10-15 23:59:21.787][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-10-15 23:59:21.789][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-10-15 23:59:21.790][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-10-15 23:59:21.792][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-10-15 23:59:21.793][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-10-15 23:59:21.795][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-10-15 23:59:21.796][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-10-15 23:59:21.798][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-10-15 23:59:21.799][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-10-15 23:59:21.801][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-10-15 23:59:21.803][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-10-15 23:59:21.804][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-10-15 23:59:21.806][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-10-15 23:59:21.807][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-10-15 23:59:21.809][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-10-15 23:59:21.810][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-10-15 23:59:21.812][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-10-15 23:59:21.813][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-10-15 23:59:21.815][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-10-15 23:59:21.816][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-10-15 23:59:21.818][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-10-15 23:59:21.820][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-10-15 23:59:21.821][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-10-15 23:59:21.823][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-10-15 23:59:21.824][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-10-15 23:59:21.826][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-10-15 23:59:21.827][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-10-15 23:59:21.829][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-10-15 23:59:21.830][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-10-15 23:59:21.832][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-10-15 23:59:21.833][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-10-15 23:59:21.835][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-10-15 23:59:21.836][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-10-15 23:59:21.838][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-10-15 23:59:21.840][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-10-15 23:59:21.841][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-10-15 23:59:21.843][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-10-15 23:59:21.844][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-10-15 23:59:21.846][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-10-15 23:59:21.847][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-10-15 23:59:21.849][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-10-15 23:59:21.850][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-10-15 23:59:21.852][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-10-15 23:59:21.853][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-10-15 23:59:21.855][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-10-15 23:59:21.857][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-10-15 23:59:21.858][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-10-15 23:59:21.860][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-10-15 23:59:21.861][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-10-15 23:59:21.863][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-10-15 23:59:21.864][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-10-15 23:59:21.866][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-10-15 23:59:21.867][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-10-15 23:59:21.869][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-10-15 23:59:21.870][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-10-15 23:59:21.872][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-10-15 23:59:21.874][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-10-15 23:59:21.875][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-10-15 23:59:21.877][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-10-15 23:59:21.878][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-10-15 23:59:21.880][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-10-15 23:59:21.881][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-10-15 23:59:21.883][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-10-15 23:59:21.885][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-10-15 23:59:21.886][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-10-15 23:59:21.888][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-10-15 23:59:21.889][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-10-15 23:59:21.892][initialize] This is biodb version 1.8.1.
biodb.DEBUG[2023-10-15 23:59:21.893][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-15 23:59:21.894][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:21.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:21.896][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.910][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:21.912][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:21.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:21.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:21.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.918][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:21.920][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:21.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:21.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:21.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.925][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:21.927][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:21.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:21.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:21.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.933][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:21.935][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:21.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:21.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:21.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.940][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:21.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:21.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:21.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:21.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.948][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:21.950][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:21.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:21.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:21.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.955][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:21.957][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:21.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:21.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:21.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.962][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[2023-10-15 23:59:21.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:21.965][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:21.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:21.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:21.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.970][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:21.972][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:21.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:21.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:21.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.978][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:21.980][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:21.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:21.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:21.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.985][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:21.988][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:21.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:21.990][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:21.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:21.993][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:21.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:21.995][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:21.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:21.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:21.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:21.999][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[2023-10-15 23:59:22.001][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:22.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:22.003][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:22.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:22.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:22.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:22.007][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[2023-10-15 23:59:22.008][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:22.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:22.010][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:22.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:22.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:22.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:22.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:22.016][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:22.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:22.018][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:22.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:22.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:22.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:22.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:22.023][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:22.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:22.025][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:22.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:22.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:22.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:22.030][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:22.031][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:22.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:22.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:22.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:22.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:22.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:22.037][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.DEBUG[2023-10-15 23:59:22.040][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.17-bioc/R/library/biodbLipidmaps/definitions.yml".
biodb.DEBUG[2023-10-15 23:59:22.042][self$getDbsInfo()$define] Define connector lipidmaps.structure.
biodb.DEBUG[2023-10-15 23:59:22.044][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:22.045][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-10-15 23:59:22.046][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:22.047][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 23:59:22.048][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:22.050][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 23:59:22.051][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:22.052][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 23:59:22.053][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-10-15 23:59:22.054][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 23:59:22.056][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:22.057][self$setPropertyValue] Setting property "name" to "LIPID MAPS Structure".
biodb.DEBUG[2023-10-15 23:59:22.058][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 23:59:22.059][self$setPropertyValue] Setting property "parsing.expr" to "LM_ID".
biodb.DEBUG[2023-10-15 23:59:22.059][self$setPropertyValue] Setting property "parsing.expr" to "CHEBI_ID".
biodb.DEBUG[2023-10-15 23:59:22.059][self$setPropertyValue] Setting property "parsing.expr" to "HMDBID".
biodb.DEBUG[2023-10-15 23:59:22.059][self$setPropertyValue] Setting property "parsing.expr" to "KEGG_ID".
biodb.DEBUG[2023-10-15 23:59:22.059][self$setPropertyValue] Setting property "parsing.expr" to "PUBCHEM_COMPOUND_ID".
biodb.DEBUG[2023-10-15 23:59:22.059][self$setPropertyValue] Setting property "parsing.expr" to "SYSTEMATIC_NAME".
biodb.DEBUG[2023-10-15 23:59:22.059][self$setPropertyValue] Setting property "parsing.expr" to "MASS".
biodb.DEBUG[2023-10-15 23:59:22.059][self$setPropertyValue] Setting property "parsing.expr" to "FORMULA".
biodb.DEBUG[2023-10-15 23:59:22.059][self$setPropertyValue] Setting property "parsing.expr" to "COMMON_NAME".
biodb.DEBUG[2023-10-15 23:59:22.061][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:22.062][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-15 23:59:22.062][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-15 23:59:22.063][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 23:59:22.064][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:59:22.065][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:59:22.066][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 23:59:22.068][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:59:22.069][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:59:22.070][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 23:59:22.071][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/data/".
biodb.DEBUG[2023-10-15 23:59:22.071][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/databases/lmsd/".
biodb.DEBUG[2023-10-15 23:59:22.072][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 23:59:22.073][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 23:59:22.074][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:22.076][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:22.077][self$getEntryFields()$define] Define field lipidmaps.structure.id.
biodb.DEBUG[2023-10-15 23:59:22.079][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-10-15 23:59:22.082][initialize] Initialize connector lipidmaps.structure.
biodb.DEBUG[2023-10-15 23:59:22.083][initialize] Register connector lipidmaps.structure with the request scheduler
biodb.DEBUG[2023-10-15 23:59:22.085][private$bdb$getRequestScheduler()$re ...] Register connector lipidmaps.structure.
biodb.DEBUG[2023-10-15 23:59:22.087][private$addConnectorRules] Create new rule for URL "www.lipidmaps.org" of connector "lipidmaps.structure".
biodb.DEBUG[2023-10-15 23:59:22.088][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2023-10-15 23:59:22.089][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2023-10-15 23:59:22.091][rule$addConnector] Connector "lipidmaps.structure" is already listed in rule "www.lipidmaps.org".
biodb.DEBUG[2023-10-15 23:59:22.092][biodb$getFactory()$createConn] Creating new connector lipidmaps.structure for database class lipidmaps.structure .
biodb.INFO [2023-10-15 23:59:22.094][biodb::testThat]
biodb.INFO [2023-10-15 23:59:22.095][biodb::testThat] Running test function  test_wsLmsdRecord_searchByName  (" wsLmsdRecord() can search by name. ").
biodb.INFO [2023-10-15 23:59:22.096][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:59:22.097][biodb::testThat]
biodb.DEBUG[2023-10-15 23:59:22.102][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[2023-10-15 23:59:22.107][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:59:22.109][cch$loadFileContent] Trying to load 1 files from cache: [1]: "cfd52aa1c2e3525a5defd7b7e8bd8bb8".
biodb.TRACE[2023-10-15 23:59:22.110][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:59:22.123][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/cfd52aa1c2e3525a5defd7b7e8bd8bb8.content".
biodb.DEBUG[2023-10-15 23:59:22.135][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[2023-10-15 23:59:22.138][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:59:22.140][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4ae22a112f570b93d2a956448ab71bd0".
biodb.TRACE[2023-10-15 23:59:22.142][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:59:22.154][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/4ae22a112f570b93d2a956448ab71bd0.content".
biodb.INFO [2023-10-15 23:59:22.172][biodb::testThat]
biodb.INFO [2023-10-15 23:59:22.174][biodb::testThat] Running test function  test_wsLmsdRecord  (" Test web service wsLmsdRecord. ").
biodb.INFO [2023-10-15 23:59:22.175][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:59:22.177][biodb::testThat]
biodb.INFO [2023-10-15 23:59:22.209][biodb::testThat]
biodb.INFO [2023-10-15 23:59:22.211][biodb::testThat] Running test function  test_wsLmsdSearch  (" Test web service wsLmsdSearch. ").
biodb.INFO [2023-10-15 23:59:22.212][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:59:22.213][biodb::testThat]
biodb.DEBUG[2023-10-15 23:59:22.217][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[2023-10-15 23:59:22.220][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:59:22.222][cch$loadFileContent] Trying to load 1 files from cache: [1]: "cb051dd8deddba61124ac06645747646".
biodb.TRACE[2023-10-15 23:59:22.224][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:59:22.236][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/cb051dd8deddba61124ac06645747646.content".
biodb.DEBUG[2023-10-15 23:59:22.242][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[2023-10-15 23:59:22.246][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:59:22.247][cch$loadFileContent] Trying to load 1 files from cache: [1]: "cb051dd8deddba61124ac06645747646".
biodb.TRACE[2023-10-15 23:59:22.249][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:59:22.251][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/cb051dd8deddba61124ac06645747646.content".
biodb.DEBUG[2023-10-15 23:59:22.301][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[2023-10-15 23:59:22.305][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:59:22.308][cch$loadFileContent] Trying to load 1 files from cache: [1]: "9edcc233717c530cf0cbf5f73b9c3fc7".
biodb.TRACE[2023-10-15 23:59:22.311][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:59:22.315][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/9edcc233717c530cf0cbf5f73b9c3fc7.content".
biodb.DEBUG[2023-10-15 23:59:22.326][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[2023-10-15 23:59:22.331][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:59:22.333][cch$loadFileContent] Trying to load 1 files from cache: [1]: "be9130a77f849b73da505cd10830451e".
biodb.TRACE[2023-10-15 23:59:22.335][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:59:22.397][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/be9130a77f849b73da505cd10830451e.content".
biodb.DEBUG[2023-10-15 23:59:22.586][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[2023-10-15 23:59:22.590][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:59:22.592][cch$loadFileContent] Trying to load 1 files from cache: [1]: "6821b039f49696a2484834eb67daa971".
biodb.TRACE[2023-10-15 23:59:22.594][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:59:22.650][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/6821b039f49696a2484834eb67daa971.content".
biodb.INFO [2023-10-15 23:59:22.883][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-10-15 23:59:22.885][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector lipidmaps.structure from the request scheduler
biodb.INFO [2023-10-15 23:59:22.887][self$deleteConn] Connector "lipidmaps.structure" deleted.
biodb.DEBUG[2023-10-15 23:59:22.889][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-10-15 23:59:22.890][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:22.892][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:22.893][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:22.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:22.896][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:22.897][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-10-15 23:59:22.904][biodb::testContext]
biodb.INFO [2023-10-15 23:59:22.906][biodb::testContext] ********************************************************************************
biodb.INFO [2023-10-15 23:59:22.907][biodb::testContext] Test context - Some other custom tests
biodb.INFO [2023-10-15 23:59:22.909][biodb::testContext] ********************************************************************************
biodb.INFO [2023-10-15 23:59:22.910][biodb::testContext]
biodb.INFO [2023-10-15 23:59:22.914][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.8.1.
biodb.DEBUG[2023-10-15 23:59:22.917][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.17-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2023-10-15 23:59:22.924][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-15 23:59:22.926][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-10-15 23:59:22.927][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-10-15 23:59:22.929][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:22.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:22.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:22.933][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-10-15 23:59:22.935][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-10-15 23:59:22.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:22.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:22.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:22.942][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-10-15 23:59:22.944][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-10-15 23:59:22.946][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:22.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:22.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:22.950][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-10-15 23:59:22.952][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-10-15 23:59:22.954][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-10-15 23:59:22.955][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:22.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:22.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:22.960][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-10-15 23:59:22.961][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-10-15 23:59:22.963][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-10-15 23:59:22.964][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:22.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:22.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:22.969][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-10-15 23:59:22.971][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-10-15 23:59:22.972][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:22.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:22.975][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[2023-10-15 23:59:22.976][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-10-15 23:59:22.978][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-10-15 23:59:22.980][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-10-15 23:59:22.981][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:22.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:22.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:22.986][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-10-15 23:59:22.987][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-10-15 23:59:22.989][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:22.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:22.991][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[2023-10-15 23:59:22.993][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-10-15 23:59:22.994][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-10-15 23:59:22.996][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-10-15 23:59:22.998][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:22.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.002][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-10-15 23:59:23.004][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-10-15 23:59:23.005][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-10-15 23:59:23.007][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-10-15 23:59:23.008][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-10-15 23:59:23.010][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-10-15 23:59:23.011][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.016][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-10-15 23:59:23.018][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-10-15 23:59:23.019][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.024][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-10-15 23:59:23.025][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-10-15 23:59:23.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.030][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.031][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-10-15 23:59:23.033][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-10-15 23:59:23.034][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.039][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-10-15 23:59:23.040][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-10-15 23:59:23.042][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.047][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-10-15 23:59:23.048][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-10-15 23:59:23.050][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.052][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.054][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-10-15 23:59:23.055][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-10-15 23:59:23.060][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-10-15 23:59:23.061][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.064][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-10-15 23:59:23.066][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-10-15 23:59:23.067][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-10-15 23:59:23.068][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.072][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-10-15 23:59:23.074][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:23.075][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-10-15 23:59:23.076][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:23.077][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 23:59:23.079][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:23.080][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 23:59:23.081][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:23.082][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 23:59:23.083][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-10-15 23:59:23.085][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 23:59:23.086][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:23.087][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-10-15 23:59:23.088][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 23:59:23.090][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:23.091][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:23.092][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-15 23:59:23.092][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-15 23:59:23.092][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-15 23:59:23.092][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-10-15 23:59:23.092][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-10-15 23:59:23.093][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 23:59:23.095][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:59:23.096][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:59:23.097][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 23:59:23.098][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:59:23.099][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:59:23.100][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 23:59:23.102][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:23.103][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 23:59:23.104][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 23:59:23.105][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:23.106][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:23.108][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-10-15 23:59:23.110][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:23.111][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-10-15 23:59:23.112][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:23.113][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 23:59:23.115][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:23.116][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 23:59:23.117][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:23.118][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 23:59:23.119][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-10-15 23:59:23.121][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 23:59:23.122][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:23.123][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-10-15 23:59:23.124][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 23:59:23.126][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:23.127][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:23.128][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-15 23:59:23.128][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-15 23:59:23.128][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-15 23:59:23.128][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-10-15 23:59:23.128][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-10-15 23:59:23.129][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 23:59:23.130][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:59:23.132][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:59:23.133][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 23:59:23.134][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:59:23.135][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:59:23.136][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 23:59:23.137][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:23.139][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 23:59:23.140][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 23:59:23.141][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:23.142][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:23.144][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-10-15 23:59:23.146][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:23.147][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-10-15 23:59:23.148][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:23.149][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 23:59:23.151][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:23.152][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 23:59:23.153][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:23.154][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 23:59:23.155][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-10-15 23:59:23.157][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 23:59:23.158][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:23.159][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-10-15 23:59:23.160][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 23:59:23.162][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:23.163][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:23.164][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:23.165][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 23:59:23.166][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:59:23.167][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:59:23.169][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 23:59:23.170][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:59:23.171][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:59:23.172][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 23:59:23.174][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:23.175][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 23:59:23.176][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 23:59:23.177][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:23.178][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:23.180][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-10-15 23:59:23.182][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:23.183][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-10-15 23:59:23.184][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:23.185][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 23:59:23.187][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:23.189][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 23:59:23.190][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:23.191][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 23:59:23.192][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-10-15 23:59:23.194][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 23:59:23.195][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:23.196][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-10-15 23:59:23.197][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 23:59:23.198][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:23.211][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:23.213][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:23.214][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 23:59:23.215][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:59:23.216][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:59:23.217][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 23:59:23.219][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:59:23.220][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:59:23.221][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 23:59:23.222][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:23.223][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 23:59:23.224][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 23:59:23.226][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:23.227][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:23.228][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-15 23:59:23.229][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.232][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:23.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:23.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.238][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.239][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:23.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:23.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.244][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:23.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:23.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.253][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:23.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:23.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.258][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[2023-10-15 23:59:23.259][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:23.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:23.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.264][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[2023-10-15 23:59:23.265][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:23.267][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:23.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.271][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:23.273][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:23.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.276][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:23.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:23.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.281][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[2023-10-15 23:59:23.282][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:23.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:23.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.287][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:23.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:23.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.293][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:23.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:23.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.298][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:23.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:23.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.304][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:23.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:23.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.309][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[2023-10-15 23:59:23.310][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:23.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:23.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.316][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:23.318][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:23.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.320][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[2023-10-15 23:59:23.321][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:23.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:23.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.326][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[2023-10-15 23:59:23.327][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:23.329][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:23.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.333][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-10-15 23:59:23.335][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-10-15 23:59:23.336][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-10-15 23:59:23.338][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-10-15 23:59:23.340][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-10-15 23:59:23.341][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-10-15 23:59:23.343][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-10-15 23:59:23.345][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-10-15 23:59:23.346][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-10-15 23:59:23.348][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-10-15 23:59:23.349][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-10-15 23:59:23.351][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-10-15 23:59:23.353][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-10-15 23:59:23.354][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-10-15 23:59:23.356][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-10-15 23:59:23.357][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-10-15 23:59:23.359][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-10-15 23:59:23.361][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-10-15 23:59:23.362][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-10-15 23:59:23.364][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-10-15 23:59:23.366][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-10-15 23:59:23.367][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-10-15 23:59:23.369][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-10-15 23:59:23.370][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-10-15 23:59:23.372][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-10-15 23:59:23.373][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-10-15 23:59:23.375][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-10-15 23:59:23.377][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-10-15 23:59:23.378][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-10-15 23:59:23.380][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-10-15 23:59:23.382][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-10-15 23:59:23.383][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-10-15 23:59:23.385][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-10-15 23:59:23.386][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-10-15 23:59:23.388][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-10-15 23:59:23.389][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-10-15 23:59:23.391][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-10-15 23:59:23.393][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-10-15 23:59:23.394][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-10-15 23:59:23.396][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-10-15 23:59:23.397][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-10-15 23:59:23.399][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-10-15 23:59:23.401][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-10-15 23:59:23.402][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-10-15 23:59:23.404][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-10-15 23:59:23.405][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-10-15 23:59:23.407][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-10-15 23:59:23.409][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-10-15 23:59:23.410][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-10-15 23:59:23.412][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-10-15 23:59:23.414][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-10-15 23:59:23.415][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-10-15 23:59:23.417][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-10-15 23:59:23.418][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-10-15 23:59:23.420][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-10-15 23:59:23.422][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-10-15 23:59:23.423][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-10-15 23:59:23.425][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-10-15 23:59:23.427][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-10-15 23:59:23.428][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-10-15 23:59:23.430][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-10-15 23:59:23.431][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-10-15 23:59:23.433][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-10-15 23:59:23.435][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-10-15 23:59:23.436][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-10-15 23:59:23.438][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-10-15 23:59:23.440][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-10-15 23:59:23.441][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-10-15 23:59:23.443][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-10-15 23:59:23.445][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-10-15 23:59:23.446][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-10-15 23:59:23.448][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-10-15 23:59:23.449][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-10-15 23:59:23.451][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-10-15 23:59:23.452][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-10-15 23:59:23.454][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-10-15 23:59:23.456][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-10-15 23:59:23.457][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-10-15 23:59:23.459][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-10-15 23:59:23.460][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-10-15 23:59:23.462][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-10-15 23:59:23.464][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-10-15 23:59:23.465][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-10-15 23:59:23.467][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-10-15 23:59:23.469][initialize] This is biodb version 1.8.1.
biodb.DEBUG[2023-10-15 23:59:23.471][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-15 23:59:23.472][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:23.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:23.474][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.476][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:23.478][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:23.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:23.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:23.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.484][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:23.487][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:23.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:23.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:23.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.492][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:23.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:23.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:23.497][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:23.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.501][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:23.503][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:23.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:23.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:23.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.509][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:23.512][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:23.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:23.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:23.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.518][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:23.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:23.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:23.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:23.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.540][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:23.542][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:23.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:23.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:23.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:23.552][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:23.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:23.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:23.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:23.560][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:23.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:23.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:23.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.565][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[2023-10-15 23:59:23.566][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:23.568][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:23.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:23.570][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:23.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.573][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:23.576][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:23.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:23.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:23.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.581][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:23.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:23.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:23.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:23.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:23.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:23.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:23.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:23.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.597][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:23.599][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:23.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:23.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:23.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.605][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:23.607][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:23.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:23.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:23.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:23.615][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:23.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:23.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:23.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.620][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-15 23:59:23.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:23.622][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:23.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:23.625][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:23.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:23.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-15 23:59:23.630][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.17-bioc/R/library/biodbLipidmaps/definitions.yml".
biodb.DEBUG[2023-10-15 23:59:23.632][self$getDbsInfo()$define] Define connector lipidmaps.structure.
biodb.DEBUG[2023-10-15 23:59:23.634][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:23.635][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-10-15 23:59:23.637][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:23.638][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-15 23:59:23.639][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:23.640][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-15 23:59:23.641][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:23.643][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-15 23:59:23.644][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-10-15 23:59:23.645][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-15 23:59:23.646][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:23.648][self$setPropertyValue] Setting property "name" to "LIPID MAPS Structure".
biodb.DEBUG[2023-10-15 23:59:23.649][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-15 23:59:23.650][self$setPropertyValue] Setting property "parsing.expr" to "LM_ID".
biodb.DEBUG[2023-10-15 23:59:23.650][self$setPropertyValue] Setting property "parsing.expr" to "CHEBI_ID".
biodb.DEBUG[2023-10-15 23:59:23.650][self$setPropertyValue] Setting property "parsing.expr" to "HMDBID".
biodb.DEBUG[2023-10-15 23:59:23.650][self$setPropertyValue] Setting property "parsing.expr" to "KEGG_ID".
biodb.DEBUG[2023-10-15 23:59:23.650][self$setPropertyValue] Setting property "parsing.expr" to "PUBCHEM_COMPOUND_ID".
biodb.DEBUG[2023-10-15 23:59:23.650][self$setPropertyValue] Setting property "parsing.expr" to "SYSTEMATIC_NAME".
biodb.DEBUG[2023-10-15 23:59:23.650][self$setPropertyValue] Setting property "parsing.expr" to "MASS".
biodb.DEBUG[2023-10-15 23:59:23.650][self$setPropertyValue] Setting property "parsing.expr" to "FORMULA".
biodb.DEBUG[2023-10-15 23:59:23.650][self$setPropertyValue] Setting property "parsing.expr" to "COMMON_NAME".
biodb.DEBUG[2023-10-15 23:59:23.651][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-10-15 23:59:23.652][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-15 23:59:23.652][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-15 23:59:23.654][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-15 23:59:23.655][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:59:23.656][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:59:23.657][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-15 23:59:23.659][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-15 23:59:23.660][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-15 23:59:23.661][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-15 23:59:23.662][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/data/".
biodb.DEBUG[2023-10-15 23:59:23.662][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/databases/lmsd/".
biodb.DEBUG[2023-10-15 23:59:23.663][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-15 23:59:23.664][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-15 23:59:23.665][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-10-15 23:59:23.667][self$setPropertyValue]
biodb.DEBUG[2023-10-15 23:59:23.668][self$getEntryFields()$define] Define field lipidmaps.structure.id.
biodb.DEBUG[2023-10-15 23:59:23.670][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-10-15 23:59:23.673][initialize] Initialize connector lipidmaps.structure.
biodb.DEBUG[2023-10-15 23:59:23.674][initialize] Register connector lipidmaps.structure with the request scheduler
biodb.DEBUG[2023-10-15 23:59:23.676][private$bdb$getRequestScheduler()$re ...] Register connector lipidmaps.structure.
biodb.DEBUG[2023-10-15 23:59:23.678][private$addConnectorRules] Create new rule for URL "www.lipidmaps.org" of connector "lipidmaps.structure".
biodb.DEBUG[2023-10-15 23:59:23.679][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2023-10-15 23:59:23.680][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2023-10-15 23:59:23.682][rule$addConnector] Connector "lipidmaps.structure" is already listed in rule "www.lipidmaps.org".
biodb.DEBUG[2023-10-15 23:59:23.683][biodb$getFactory()$createConn] Creating new connector lipidmaps.structure for database class lipidmaps.structure .
biodb.INFO [2023-10-15 23:59:23.685][biodb::testThat]
biodb.INFO [2023-10-15 23:59:23.687][biodb::testThat] Running test function  test_noOtherConnNeeded  (" No other connector is needed. ").
biodb.INFO [2023-10-15 23:59:23.688][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-15 23:59:23.689][biodb::testThat]
biodb.DEBUG[2023-10-15 23:59:23.694][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[2023-10-15 23:59:23.699][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-10-15 23:59:23.701][cch$loadFileContent] Trying to load 1 files from cache: [1]: "13e15253cf65619ae7a700f5534f6030".
biodb.TRACE[2023-10-15 23:59:23.702][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-15 23:59:23.816][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/13e15253cf65619ae7a700f5534f6030.content".
biodb.DEBUG[2023-10-15 23:59:25.225][private$loadEntries] Creating entries from ids [2]: "LMFA00000001, LMFA00000002".
biodb.DEBUG[2023-10-15 23:59:25.227][conn$getEntryContent] Get LIPID MAPS Structure entry content(s) for 2 id(s)...
biodb.TRACE[2023-10-15 23:59:25.229][cch$loadFileContent] Trying to load 2 files from cache: [2]: "LMFA00000001, LMFA00000002".
biodb.TRACE[2023-10-15 23:59:25.231][cch$loadFileContent] file.exist = [2]: "TRUE, TRUE".
biodb.TRACE[2023-10-15 23:59:25.236][loadFileContents] Loaded 2 files from cache: [2]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA00000001.tsv, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA00000002.tsv".
biodb.DEBUG[2023-10-15 23:59:25.238][conn$getEntryContent] 2 LIPID MAPS Structure entry content(s) loaded from cache.
biodb.DEBUG[2023-10-15 23:59:25.240][self$createEntryFromContent] Creating LIPID MAPS Structure entries from 2 content(s).
biodb.DEBUG[2023-10-15 23:59:25.243][self$createEntryFromContent] Parsing 2 LIPID MAPS Structure entries.
biodb.DEBUG[2023-10-15 23:59:25.247][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:59:25.248][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:25.250][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:25.257][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:25.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:25.260][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:25.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:59:25.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:25.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:25.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.271][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:25.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:25.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.276][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:59:25.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:59:25.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.281][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:59:25.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:59:25.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.286][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-15 23:59:25.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-15 23:59:25.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.292][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:59:25.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:59:25.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.297][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:25.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:25.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.302][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:25.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:25.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.307][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:25.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:25.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.313][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:25.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:25.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.318][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-10-15 23:59:25.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:25.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.323][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-10-15 23:59:25.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:25.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.328][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:59:25.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:59:25.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.334][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:59:25.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:59:25.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.339][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:25.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:25.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.344][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:25.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:25.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.350][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-10-15 23:59:25.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:25.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.355][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2023-10-15 23:59:25.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:25.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.360][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:25.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:25.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.365][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:25.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:25.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.371][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-10-15 23:59:25.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:25.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.377][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:25.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:25.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.382][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:25.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:25.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.387][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:25.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:25.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.393][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:25.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:25.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.398][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:25.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:25.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.403][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:25.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:25.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.408][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:25.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:25.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.413][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:25.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:25.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.418][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:25.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:25.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:25.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:25.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.428][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:25.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:25.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:25.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:25.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:59:25.438][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:59:25.439][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:25.440][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:25.448][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:25.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:25.451][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:25.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:59:25.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:25.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:25.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:25.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:25.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.469][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:59:25.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:59:25.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.474][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:59:25.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:59:25.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.479][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-15 23:59:25.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-15 23:59:25.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.484][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:59:25.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-15 23:59:25.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.489][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:25.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:25.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.494][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:25.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:25.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.500][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:25.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:25.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.505][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:25.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:25.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.510][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-10-15 23:59:25.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:25.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.515][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-10-15 23:59:25.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:25.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.520][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:59:25.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:59:25.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.525][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:59:25.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:59:25.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.530][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:25.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:25.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.535][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:25.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:25.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.541][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-10-15 23:59:25.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:25.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.546][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2023-10-15 23:59:25.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:25.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.551][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:25.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:25.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.569][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:25.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:25.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.575][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-10-15 23:59:25.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:25.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.580][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:25.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:25.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.585][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:25.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:25.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.590][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:25.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:25.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.595][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:25.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:25.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:25.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:25.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:25.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:25.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:25.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:25.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:25.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:25.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:25.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:25.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.625][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:25.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:25.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:25.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:25.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.635][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:25.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:25.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:25.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:25.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-15 23:59:25.645][self$createEntryFromContent] Accession numbers: LMFA00000001, LMFA00000002.
biodb.DEBUG[2023-10-15 23:59:25.648][conn$getBiodb()$entriesToDataframe] 2 entrie(s) to convert in data frame.
biodb.DEBUG[2023-10-15 23:59:25.650][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:59:25.651][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:25.652][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:25.659][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:25.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:25.662][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:25.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:59:25.665][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-15 23:59:25.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-15 23:59:25.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.670][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-15 23:59:25.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-15 23:59:25.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.675][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-10-15 23:59:25.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-10-15 23:59:25.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.681][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-10-15 23:59:25.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-10-15 23:59:25.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.685][private$selectFields] Fields none
biodb.TRACE[2023-10-15 23:59:25.686][private$selectFields]
biodb.TRACE[2023-10-15 23:59:25.688][private$selectFields] Fields is null: TRUE
biodb.TRACE[2023-10-15 23:59:25.689][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 23:59:25.690][private$selectFields] Fields [8]: "accession, chebi.id, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, name, lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:25.691][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:25.693][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:25.694][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.695][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.696][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:59:25.697][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:59:25.699][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.700][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.701][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:25.702][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:25.703][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.705][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.706][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:25.707][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:25.708][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.710][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.711][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:25.712][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:25.713][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.714][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.716][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:59:25.717][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:59:25.718][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.719][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.721][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:25.722][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:25.723][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.724][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.725][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:25.727][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:25.728][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.729][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.730][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:25.732][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:25.733][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.734][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.735][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:59:25.737][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:59:25.738][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.739][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.740][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:25.742][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:25.743][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.744][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.745][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:25.747][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:25.748][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.749][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.750][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:25.752][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:25.753][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.754][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.755][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:59:25.757][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:59:25.758][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.759][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.761][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:25.762][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:25.763][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.764][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.765][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:25.767][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:25.768][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.769][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.771][private$selectFields] Fields [8]: "accession, chebi.id, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, name, lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:25.772][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, name, lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:25.773][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:25.774][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:25.776][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.777][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.779][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:59:25.781][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:59:25.783][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.784][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.785][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:25.787][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:25.788][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.789][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.791][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:25.792][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:25.793][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.794][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.796][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:25.797][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:25.798][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.800][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.801][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:59:25.802][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:59:25.803][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.805][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.806][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:25.807][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:25.808][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.809][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.811][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:25.812][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:25.813][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.814][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.816][private$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[2023-10-15 23:59:25.817][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:25.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:25.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:25.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:25.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.828][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:25.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:25.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.833][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:59:25.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:59:25.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.838][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:59:25.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:59:25.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.843][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:59:25.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:59:25.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.849][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:25.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:25.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.854][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:25.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:25.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.858][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:25.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:25.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.864][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:25.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:25.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.869][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:25.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:25.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.874][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:25.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:25.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.879][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:25.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:25.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.884][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:25.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:25.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.889][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:25.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:25.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.909][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:59:25.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:59:25.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.914][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:59:25.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:59:25.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.919][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:59:25.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:59:25.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.924][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:25.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:25.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.929][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:25.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:25.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.934][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:25.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:25.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.939][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:25.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:25.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.944][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:25.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:25.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.949][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:25.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:25.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.959][private$entriesToListOfDataframes] Entry converted to data frame: [1, 8]: [accession, chebi.id, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, ...] [LMFA00000001, 178363, 10930192, 2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride, 626.491025, ...].
biodb.DEBUG[2023-10-15 23:59:25.961][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-15 23:59:25.962][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:25.963][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:25.970][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:25.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:25.973][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:25.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-15 23:59:25.976][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-15 23:59:25.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-15 23:59:25.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.981][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-15 23:59:25.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-15 23:59:25.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.986][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-10-15 23:59:25.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-10-15 23:59:25.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.991][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-10-15 23:59:25.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-10-15 23:59:25.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:25.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:25.996][private$selectFields] Fields none
biodb.TRACE[2023-10-15 23:59:25.997][private$selectFields]
biodb.TRACE[2023-10-15 23:59:25.998][private$selectFields] Fields is null: TRUE
biodb.TRACE[2023-10-15 23:59:25.999][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-10-15 23:59:26.000][private$selectFields] Fields [8]: "accession, chebi.id, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, name, lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:26.002][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:26.003][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:26.004][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.005][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.006][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:59:26.008][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:59:26.009][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.010][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.011][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:26.012][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:26.014][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.015][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.016][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:26.017][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:26.018][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.019][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.021][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:26.022][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:26.023][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.024][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.025][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:59:26.027][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:59:26.028][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.029][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.030][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:26.032][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:26.033][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.034][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.035][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:26.036][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:26.038][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.039][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.040][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:26.041][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:26.042][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.044][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.045][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:59:26.046][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:59:26.047][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.048][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.050][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:26.051][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:26.052][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.053][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.055][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:26.056][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:26.057][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.058][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.059][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:26.061][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:26.062][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.063][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.064][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:59:26.065][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:59:26.067][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.068][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.069][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:26.070][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:26.071][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.072][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.074][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:26.075][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:26.076][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.077][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.078][private$selectFields] Fields [8]: "accession, chebi.id, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, name, lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:26.080][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, name, lipidmaps.structure.id"
biodb.TRACE[2023-10-15 23:59:26.081][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:26.082][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:26.083][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.084][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.086][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:59:26.087][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:59:26.088][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.089][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.090][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:26.092][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:26.093][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.094][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.096][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:26.097][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:26.098][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.099][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.101][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:26.102][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:26.103][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.104][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.105][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:59:26.107][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:59:26.108][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.109][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.110][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:26.111][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:26.113][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.114][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.115][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:26.116][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:26.117][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.119][ef$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.120][private$organizeFieldsByGroups] Groups [2]: "c("accession", "chebi.id", "ncbi.pubchem.comp.id", "comp.iupac.name.syst", "monoisotopic.mass", "formula", "name", "lipidmaps.structure.id"), list()"
biodb.TRACE[2023-10-15 23:59:26.121][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:26.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:26.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:26.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:26.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.132][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-15 23:59:26.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-15 23:59:26.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.138][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:59:26.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:59:26.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.142][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:59:26.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:59:26.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.147][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-15 23:59:26.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-15 23:59:26.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.153][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:26.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:26.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.158][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:26.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:26.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.163][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:26.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-15 23:59:26.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.168][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:26.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:26.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.173][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:26.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:26.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.178][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:26.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-15 23:59:26.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.183][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:26.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:26.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.188][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:26.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:26.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.193][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:26.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-15 23:59:26.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.199][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:59:26.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:59:26.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.204][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:59:26.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:59:26.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.209][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-15 23:59:26.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-15 23:59:26.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.214][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:26.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:26.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.230][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:26.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:26.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.235][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-15 23:59:26.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-15 23:59:26.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.240][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:26.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:26.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.245][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:26.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:26.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.250][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:26.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-10-15 23:59:26.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-15 23:59:26.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-15 23:59:26.258][private$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[2023-10-15 23:59:26.260][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.DEBUG[2023-10-15 23:59:26.261][conn$getBiodb()$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.INFO [2023-10-15 23:59:26.269][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-10-15 23:59:26.271][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector lipidmaps.structure from the request scheduler
biodb.INFO [2023-10-15 23:59:26.272][self$deleteConn] Connector "lipidmaps.structure" deleted.
biodb.DEBUG[2023-10-15 23:59:26.273][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-10-15 23:59:26.274][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-15 23:59:26.275][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-15 23:59:26.276][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-15 23:59:26.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-15 23:59:26.279][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-10-15 23:59:26.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 163 ]
> 
> proc.time()
   user  system elapsed 
  21.50    0.79   24.45

Example timings

biodbLipidmaps.Rcheck/biodbLipidmaps-Ex.timings

nameusersystemelapsed
LipidmapsStructureConn2.891.414.31
LipidmapsStructureEntry0.910.030.94