Back to Multiple platform build/check report for BioC 3.16:   simplified   long
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This page was generated on 2023-04-12 11:05:26 -0400 (Wed, 12 Apr 2023).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.5 LTS)x86_644.2.3 (2023-03-15) -- "Shortstop Beagle" 4502
palomino4Windows Server 2022 Datacenterx644.2.3 (2023-03-15 ucrt) -- "Shortstop Beagle" 4282
lconwaymacOS 12.5.1 Montereyx86_644.2.3 (2023-03-15) -- "Shortstop Beagle" 4310
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

CHECK results for biodbLipidmaps on palomino4


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

raw results

Package 184/2183HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbLipidmaps 1.4.1  (landing page)
Pierrick Roger
Snapshot Date: 2023-04-10 14:00:05 -0400 (Mon, 10 Apr 2023)
git_url: https://git.bioconductor.org/packages/biodbLipidmaps
git_branch: RELEASE_3_16
git_last_commit: 75afc75
git_last_commit_date: 2022-12-01 07:31:40 -0400 (Thu, 01 Dec 2022)
nebbiolo2Linux (Ubuntu 20.04.5 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino4Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.5.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: biodbLipidmaps
Version: 1.4.1
Command: F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:biodbLipidmaps.install-out.txt --library=F:\biocbuild\bbs-3.16-bioc\R\library --no-vignettes --timings biodbLipidmaps_1.4.1.tar.gz
StartedAt: 2023-04-10 23:20:57 -0400 (Mon, 10 Apr 2023)
EndedAt: 2023-04-10 23:22:32 -0400 (Mon, 10 Apr 2023)
EllapsedTime: 94.4 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbLipidmaps.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:biodbLipidmaps.install-out.txt --library=F:\biocbuild\bbs-3.16-bioc\R\library --no-vignettes --timings biodbLipidmaps_1.4.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'F:/biocbuild/bbs-3.16-bioc/meat/biodbLipidmaps.Rcheck'
* using R version 4.2.3 (2023-03-15 ucrt)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'biodbLipidmaps/DESCRIPTION' ... OK
* this is package 'biodbLipidmaps' version '1.4.1'
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking 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-3.16-bioc\R\bin\R.exe CMD INSTALL biodbLipidmaps
###
##############################################################################
##############################################################################


* installing to library 'F:/biocbuild/bbs-3.16-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 4.2.3 (2023-03-15 ucrt) -- "Shortstop Beagle"
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 [2023-04-10 23:21:50.171][biodb::testContext]
biodb.INFO [2023-04-10 23:21:50.174][biodb::testContext] ********************************************************************************
biodb.INFO [2023-04-10 23:21:50.176][biodb::testContext] Test context - Generic tests
biodb.INFO [2023-04-10 23:21:50.177][biodb::testContext] ********************************************************************************
biodb.INFO [2023-04-10 23:21:50.179][biodb::testContext]
biodb.INFO [2023-04-10 23:21:50.187][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.6.1.
biodb.DEBUG[2023-04-10 23:21:50.190][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.16-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2023-04-10 23:21:50.203][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-04-10 23:21:50.206][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-04-10 23:21:50.208][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-04-10 23:21:50.211][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:50.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:50.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:50.217][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-04-10 23:21:50.251][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-04-10 23:21:50.253][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:50.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:50.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:50.259][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-04-10 23:21:50.261][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-04-10 23:21:50.263][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:50.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:50.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:50.268][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-04-10 23:21:50.269][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-04-10 23:21:50.271][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-04-10 23:21:50.272][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:50.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:50.274][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:50.276][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-04-10 23:21:50.278][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-04-10 23:21:50.279][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-04-10 23:21:50.280][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:50.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:50.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:50.284][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-04-10 23:21:50.286][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-04-10 23:21:50.287][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:50.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:50.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:50.291][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-04-10 23:21:50.292][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-04-10 23:21:50.293][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-04-10 23:21:50.295][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:50.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:50.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:50.299][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-04-10 23:21:50.300][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-04-10 23:21:50.301][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:50.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:50.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:50.305][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-04-10 23:21:50.307][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-04-10 23:21:50.308][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-04-10 23:21:50.309][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:50.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:50.312][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:50.320][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-04-10 23:21:50.322][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-04-10 23:21:50.323][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-04-10 23:21:50.325][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-04-10 23:21:50.326][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-04-10 23:21:50.327][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-04-10 23:21:50.329][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:50.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:50.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:50.333][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-04-10 23:21:50.334][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-04-10 23:21:50.336][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:50.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:50.338][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:50.339][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-04-10 23:21:50.341][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-04-10 23:21:50.342][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:50.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:50.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:50.346][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-04-10 23:21:50.348][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-04-10 23:21:50.349][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:50.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:50.351][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:50.353][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-04-10 23:21:50.354][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-04-10 23:21:50.356][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:50.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:50.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:50.360][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-04-10 23:21:50.361][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-04-10 23:21:50.362][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:50.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:50.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:50.366][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-04-10 23:21:50.368][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-04-10 23:21:50.372][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-04-10 23:21:50.373][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:50.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:50.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:50.377][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-04-10 23:21:50.379][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-04-10 23:21:50.380][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-04-10 23:21:50.382][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:50.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:50.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:50.388][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-04-10 23:21:50.434][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-04-10 23:21:50.449][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-04-10 23:21:50.451][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-04-10 23:21:50.453][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-04-10 23:21:50.454][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-04-10 23:21:50.455][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-04-10 23:21:50.456][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-04-10 23:21:50.458][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-04-10 23:21:50.459][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-04-10 23:21:50.460][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-04-10 23:21:50.462][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-04-10 23:21:50.463][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-04-10 23:21:50.464][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-04-10 23:21:50.465][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:21:50.466][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-04-10 23:21:50.468][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-04-10 23:21:50.468][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-04-10 23:21:50.468][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-04-10 23:21:50.468][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-04-10 23:21:50.468][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-04-10 23:21:50.695][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-04-10 23:21:50.698][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 23:21:50.700][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 23:21:50.702][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-04-10 23:21:50.704][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 23:21:50.705][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 23:21:50.707][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-04-10 23:21:50.709][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:21:50.711][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-04-10 23:21:50.713][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-04-10 23:21:50.715][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-04-10 23:21:50.717][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:21:50.719][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-04-10 23:21:50.722][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-04-10 23:21:50.724][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-04-10 23:21:50.726][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-04-10 23:21:50.728][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-04-10 23:21:50.730][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-04-10 23:21:50.731][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-04-10 23:21:50.733][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-04-10 23:21:50.735][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-04-10 23:21:50.737][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-04-10 23:21:50.739][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-04-10 23:21:50.741][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-04-10 23:21:50.743][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-04-10 23:21:50.745][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-04-10 23:21:50.747][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:21:50.748][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-04-10 23:21:50.750][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-04-10 23:21:50.750][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-04-10 23:21:50.750][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-04-10 23:21:50.750][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-04-10 23:21:50.750][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-04-10 23:21:50.752][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-04-10 23:21:50.754][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 23:21:50.756][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 23:21:50.758][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-04-10 23:21:50.760][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 23:21:50.761][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 23:21:50.763][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-04-10 23:21:50.765][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:21:50.767][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-04-10 23:21:50.768][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-04-10 23:21:50.770][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-04-10 23:21:50.772][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:21:50.774][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-04-10 23:21:50.777][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-04-10 23:21:50.779][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-04-10 23:21:50.781][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-04-10 23:21:50.783][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-04-10 23:21:50.785][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-04-10 23:21:50.787][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-04-10 23:21:50.789][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-04-10 23:21:50.791][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-04-10 23:21:50.793][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-04-10 23:21:50.795][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-04-10 23:21:50.797][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-04-10 23:21:50.798][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-04-10 23:21:50.800][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-04-10 23:21:50.802][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:21:50.804][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-04-10 23:21:50.806][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:21:50.808][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-04-10 23:21:50.810][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 23:21:50.811][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 23:21:50.813][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-04-10 23:21:50.815][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 23:21:50.817][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 23:21:50.819][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-04-10 23:21:50.821][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:21:50.822][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-04-10 23:21:50.824][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-04-10 23:21:50.826][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-04-10 23:21:50.828][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:21:50.831][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-04-10 23:21:50.834][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-04-10 23:21:50.836][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-04-10 23:21:50.839][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-04-10 23:21:50.841][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-04-10 23:21:50.843][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-04-10 23:21:50.845][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-04-10 23:21:50.847][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-04-10 23:21:50.849][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-04-10 23:21:50.851][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-04-10 23:21:50.853][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-04-10 23:21:50.855][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-04-10 23:21:50.857][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-04-10 23:21:50.859][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-04-10 23:21:50.861][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:21:50.862][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-04-10 23:21:50.863][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:21:50.864][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-04-10 23:21:50.865][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 23:21:50.866][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 23:21:50.868][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-04-10 23:21:50.869][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 23:21:50.870][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 23:21:50.871][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-04-10 23:21:50.872][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:21:50.873][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-04-10 23:21:50.874][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-04-10 23:21:50.876][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-04-10 23:21:50.877][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:21:50.881][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-04-10 23:21:50.882][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:50.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:50.884][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:50.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:50.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:50.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:50.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:50.889][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:50.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:50.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:50.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:50.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:50.895][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:50.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:50.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:50.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:50.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:50.900][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:50.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:50.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:50.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:50.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:50.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:50.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:50.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:50.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:50.912][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[2023-04-10 23:21:50.913][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:50.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:50.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:50.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:50.920][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[2023-04-10 23:21:50.922][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:50.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:50.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:50.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:50.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:50.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:50.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:50.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:50.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:50.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:50.939][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:50.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:50.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:50.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:50.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:50.948][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:50.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:50.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:50.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:50.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:50.957][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:50.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:50.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:50.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:50.963][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[2023-04-10 23:21:50.965][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:50.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:50.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:50.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:50.972][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:50.974][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:50.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:50.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:50.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:50.981][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:50.983][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:50.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:50.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:50.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:50.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:50.992][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:50.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:50.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:50.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:51.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:51.002][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:51.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:51.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:51.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:51.009][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.DEBUG[2023-04-10 23:21:51.010][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:51.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:51.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:51.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:51.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:51.019][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-04-10 23:21:51.026][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-04-10 23:21:51.028][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-04-10 23:21:51.031][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-04-10 23:21:51.034][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-04-10 23:21:51.037][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-04-10 23:21:51.040][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-04-10 23:21:51.042][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-04-10 23:21:51.045][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-04-10 23:21:51.056][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-04-10 23:21:51.059][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-04-10 23:21:51.062][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-04-10 23:21:51.065][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-04-10 23:21:51.068][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-04-10 23:21:51.070][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-04-10 23:21:51.073][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-04-10 23:21:51.075][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-04-10 23:21:51.078][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-04-10 23:21:51.081][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-04-10 23:21:51.083][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-04-10 23:21:51.085][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-04-10 23:21:51.088][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-04-10 23:21:51.090][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-04-10 23:21:51.093][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-04-10 23:21:51.095][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-04-10 23:21:51.098][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-04-10 23:21:51.100][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-04-10 23:21:51.103][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-04-10 23:21:51.106][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-04-10 23:21:51.108][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-04-10 23:21:51.111][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-04-10 23:21:51.113][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-04-10 23:21:51.115][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-04-10 23:21:51.118][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-04-10 23:21:51.120][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-04-10 23:21:51.123][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-04-10 23:21:51.125][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-04-10 23:21:51.127][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-04-10 23:21:51.128][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-04-10 23:21:51.130][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-04-10 23:21:51.132][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-04-10 23:21:51.134][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-04-10 23:21:51.135][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-04-10 23:21:51.137][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-04-10 23:21:51.139][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-04-10 23:21:51.140][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-04-10 23:21:51.142][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-04-10 23:21:51.144][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-04-10 23:21:51.146][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-04-10 23:21:51.147][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-04-10 23:21:51.149][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-04-10 23:21:51.151][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-04-10 23:21:51.153][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-04-10 23:21:51.155][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-04-10 23:21:51.157][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-04-10 23:21:51.160][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-04-10 23:21:51.162][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-04-10 23:21:51.164][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-04-10 23:21:51.166][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-04-10 23:21:51.167][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-04-10 23:21:51.169][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-04-10 23:21:51.172][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-04-10 23:21:51.174][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-04-10 23:21:51.177][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-04-10 23:21:51.180][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-04-10 23:21:51.182][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-04-10 23:21:51.185][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-04-10 23:21:51.188][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-04-10 23:21:51.190][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-04-10 23:21:51.193][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-04-10 23:21:51.195][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-04-10 23:21:51.198][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-04-10 23:21:51.201][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-04-10 23:21:51.204][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-04-10 23:21:51.206][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-04-10 23:21:51.209][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-04-10 23:21:51.211][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-04-10 23:21:51.214][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-04-10 23:21:51.217][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-04-10 23:21:51.220][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-04-10 23:21:51.222][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-04-10 23:21:51.225][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-04-10 23:21:51.227][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-04-10 23:21:51.265][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-04-10 23:21:51.268][initialize] This is biodb version 1.6.1.
biodb.DEBUG[2023-04-10 23:21:51.272][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-04-10 23:21:51.274][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:51.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:51.276][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:51.277][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[2023-04-10 23:21:51.282][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:51.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:21:51.284][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:21:51.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:51.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:51.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:51.288][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[2023-04-10 23:21:51.290][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:51.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:21:51.292][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:21:51.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:51.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:51.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:51.297][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[2023-04-10 23:21:51.299][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:51.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:21:51.302][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:21:51.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:51.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:51.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:51.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:51.307][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:51.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:21:51.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:21:51.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:51.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:51.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:51.314][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[2023-04-10 23:21:51.315][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:51.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:21:51.318][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:21:51.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:51.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:51.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:51.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:51.323][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:51.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:21:51.325][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:21:51.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:51.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:51.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:51.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:51.331][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:51.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:21:51.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:21:51.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:51.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:51.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:51.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:51.338][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:51.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:21:51.340][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:21:51.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:51.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:51.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:51.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:51.346][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:51.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:21:51.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:21:51.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:51.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:51.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:51.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:51.354][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:51.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:21:51.356][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:21:51.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:51.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:51.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:51.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:51.363][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:51.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:21:51.366][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:21:51.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:51.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:51.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:51.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:51.375][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:51.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:21:51.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:21:51.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:51.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:51.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:51.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:51.387][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:51.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:21:51.391][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:21:51.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:51.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:51.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:51.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:51.400][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:51.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:21:51.404][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:21:51.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:51.407][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:51.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:51.411][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[2023-04-10 23:21:51.413][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:51.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:21:51.416][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:21:51.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:51.420][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:51.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:51.423][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:51.425][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:51.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:21:51.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:21:51.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:51.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:51.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:51.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:51.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:21:51.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:21:51.440][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:21:51.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:51.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:51.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:51.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:51.460][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.16-bioc/R/library/biodbLipidmaps/definitions.yml".
biodb.DEBUG[2023-04-10 23:21:51.472][self$getDbsInfo()$define] Define connector lipidmaps.structure.
biodb.DEBUG[2023-04-10 23:21:51.474][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-04-10 23:21:51.476][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-04-10 23:21:51.477][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-04-10 23:21:51.479][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-04-10 23:21:51.480][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-04-10 23:21:51.481][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-04-10 23:21:51.482][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-04-10 23:21:51.484][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-04-10 23:21:51.485][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-04-10 23:21:51.486][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-04-10 23:21:51.487][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-04-10 23:21:51.488][self$setPropertyValue] Setting property "name" to "LIPID MAPS Structure".
biodb.DEBUG[2023-04-10 23:21:51.490][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-04-10 23:21:51.491][self$setPropertyValue] Setting property "parsing.expr" to "LM_ID".
biodb.DEBUG[2023-04-10 23:21:51.491][self$setPropertyValue] Setting property "parsing.expr" to "CHEBI_ID".
biodb.DEBUG[2023-04-10 23:21:51.491][self$setPropertyValue] Setting property "parsing.expr" to "HMDBID".
biodb.DEBUG[2023-04-10 23:21:51.491][self$setPropertyValue] Setting property "parsing.expr" to "KEGG_ID".
biodb.DEBUG[2023-04-10 23:21:51.491][self$setPropertyValue] Setting property "parsing.expr" to "PUBCHEM_COMPOUND_ID".
biodb.DEBUG[2023-04-10 23:21:51.491][self$setPropertyValue] Setting property "parsing.expr" to "SYSTEMATIC_NAME".
biodb.DEBUG[2023-04-10 23:21:51.491][self$setPropertyValue] Setting property "parsing.expr" to "MASS".
biodb.DEBUG[2023-04-10 23:21:51.491][self$setPropertyValue] Setting property "parsing.expr" to "FORMULA".
biodb.DEBUG[2023-04-10 23:21:51.491][self$setPropertyValue] Setting property "parsing.expr" to "COMMON_NAME".
biodb.DEBUG[2023-04-10 23:21:51.492][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-04-10 23:21:51.494][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-04-10 23:21:51.494][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-04-10 23:21:51.495][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-04-10 23:21:51.496][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 23:21:51.497][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 23:21:51.498][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-04-10 23:21:51.500][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 23:21:51.501][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 23:21:51.502][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-04-10 23:21:51.503][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/data/".
biodb.DEBUG[2023-04-10 23:21:51.503][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/databases/lmsd/".
biodb.DEBUG[2023-04-10 23:21:51.504][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-04-10 23:21:51.505][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-04-10 23:21:51.507][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-04-10 23:21:51.508][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:21:51.515][self$getEntryFields()$define] Define field lipidmaps.structure.id.
biodb.DEBUG[2023-04-10 23:21:51.517][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-04-10 23:21:51.546][initialize] Initialize connector lipidmaps.structure.
biodb.DEBUG[2023-04-10 23:21:51.548][initialize] Register connector lipidmaps.structure with the request scheduler
biodb.DEBUG[2023-04-10 23:21:51.554][private$bdb$getRequestScheduler()$re ...] Register connector lipidmaps.structure.
biodb.DEBUG[2023-04-10 23:21:51.560][private$addConnectorRules] Create new rule for URL "www.lipidmaps.org" of connector "lipidmaps.structure".
biodb.DEBUG[2023-04-10 23:21:51.564][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2023-04-10 23:21:51.566][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2023-04-10 23:21:51.568][rule$addConnector] Connector "lipidmaps.structure" is already listed in rule "www.lipidmaps.org".
biodb.DEBUG[2023-04-10 23:21:51.569][biodb$getFactory()$createConn] Creating new connector lipidmaps.structure for database class lipidmaps.structure .
biodb.INFO [2023-04-10 23:21:51.578][biodb::testThat]
biodb.INFO [2023-04-10 23:21:51.580][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2023-04-10 23:21:51.581][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 23:21:51.582][biodb::testThat]
biodb.TRACE[2023-04-10 23:21:51.587][loadFileContents] Loaded 1 files from cache: [1]: "F:/biocbuild/bbs-3.16-bioc/R/library/biodbLipidmaps/testref/entry-lipidmaps.structure-LMFA00000001-content.tsv".
biodb.DEBUG[2023-04-10 23:21:51.590][biodb$getFactory()$createEntryFromCo ...] Creating LIPID MAPS Structure entries from 1 content(s).
biodb.DEBUG[2023-04-10 23:21:51.593][biodb$getFactory()$createEntryFromCo ...] Parsing 1 LIPID MAPS Structure entries.
biodb.DEBUG[2023-04-10 23:21:51.602][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 23:21:51.603][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:21:51.604][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:21:51.624][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:51.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:51.628][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:51.629][FUN] Functions in observer BiodbConfig: [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[2023-04-10 23:21:51.643][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:21:51.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:21:51.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:51.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:51.650][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:21:51.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:21:51.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:51.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:51.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 23:21:51.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 23:21:51.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:51.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:51.673][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-04-10 23:21:51.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-04-10 23:21:51.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:51.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:51.678][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 23:21:51.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 23:21:51.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:51.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:51.683][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:21:51.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:21:51.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:51.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:51.714][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:21:51.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:21:51.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:51.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:51.720][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:21:51.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:21:51.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:51.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:51.725][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:21:51.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:21:51.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:51.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:51.732][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-04-10 23:21:51.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:51.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:51.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:51.738][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-04-10 23:21:51.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:51.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:51.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:51.743][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 23:21:51.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 23:21:51.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:51.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:51.749][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 23:21:51.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 23:21:51.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:51.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:51.755][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:21:51.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:51.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:51.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:51.761][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:21:51.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:51.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:51.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:51.798][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-04-10 23:21:51.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:51.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:51.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:51.806][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2023-04-10 23:21:51.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:51.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:51.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:51.814][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:21:51.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:51.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:51.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:51.822][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:21:51.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:51.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:51.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:51.830][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-04-10 23:21:51.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:51.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:51.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:51.863][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:21:51.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:51.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:51.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:51.873][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:21:51.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:51.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:51.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:51.927][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:21:51.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:51.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:51.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:51.934][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:21:51.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:51.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:51.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:51.939][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:21:51.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:51.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:51.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:51.944][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:21:51.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:21:51.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:51.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:51.949][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:21:51.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:21:51.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:51.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:51.956][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:21:51.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:21:51.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:51.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:51.962][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:21:51.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:21:51.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:51.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:51.968][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:21:51.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:21:51.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:51.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:51.973][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:21:51.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:21:51.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:51.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:51.981][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:21:51.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:21:51.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:51.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:51.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:21:51.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:21:51.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:51.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:51.996][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:21:51.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:21:51.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:21:52.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:21:52.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 23:21:52.006][biodb$getFactory()$createEntryFromCo ...] Accession numbers: LMFA00000001.
biodb.TRACE[2023-04-10 23:21:52.011][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-04-10 23:21:52.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-04-10 23:21:52.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.016][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-04-10 23:21:52.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-04-10 23:21:52.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.023][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-04-10 23:21:52.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-04-10 23:21:52.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.031][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-04-10 23:21:52.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-04-10 23:21:52.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.058][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:21:52.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:21:52.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.079][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:21:52.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:21:52.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.098][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:21:52.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:21:52.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.104][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:21:52.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:21:52.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:21:52.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:21:52.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.115][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:21:52.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:21:52.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.120][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:21:52.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:21:52.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.127][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:21:52.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:21:52.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.134][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:21:52.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:21:52.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.140][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:21:52.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:21:52.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.146][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:21:52.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:21:52.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.164][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:21:52.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:21:52.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:21:52.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:21:52.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.174][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:21:52.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:21:52.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.179][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:21:52.181][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:21:52.182][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.183][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.184][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:21:52.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:21:52.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.201][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:21:52.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:52.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.208][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:21:52.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:52.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.213][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:21:52.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:52.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.218][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:21:52.220][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:52.221][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.222][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.223][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:21:52.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:52.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.242][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:21:52.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:21:52.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.251][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:21:52.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:21:52.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.259][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:21:52.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:21:52.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.268][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:21:52.270][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:21:52.272][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.273][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.275][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:21:52.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:21:52.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.297][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 23:21:52.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 23:21:52.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.305][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 23:21:52.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 23:21:52.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.314][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 23:21:52.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 23:21:52.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.321][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 23:21:52.323][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 23:21:52.325][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.327][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.329][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 23:21:52.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 23:21:52.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.351][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:52.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:52.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.360][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:52.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:52.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:52.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:52.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.376][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:52.378][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:52.380][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.382][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.384][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:52.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:52.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.406][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:21:52.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:21:52.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.414][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:21:52.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:21:52.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.423][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:21:52.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:21:52.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.431][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:21:52.433][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:21:52.435][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.436][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.438][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:21:52.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:21:52.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.469][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:21:52.472][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:21:52.474][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.477][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.490][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:21:52.493][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:21:52.495][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.497][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.511][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 23:21:52.513][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 23:21:52.515][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.518][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.531][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:52.534][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:52.536][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.538][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.550][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:21:52.552][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:52.554][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.556][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.569][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:21:52.571][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:21:52.573][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.575][ef$get] fields variable is a list.
biodb.INFO [2023-04-10 23:21:52.590][biodb::testThat]
biodb.INFO [2023-04-10 23:21:52.592][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2023-04-10 23:21:52.594][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 23:21:52.596][biodb::testThat]
biodb.DEBUG[2023-04-10 23:21:52.619][private$loadEntries] Creating entries from ids [1]: "LMFA00000001".
biodb.DEBUG[2023-04-10 23:21:52.630][conn$getEntryContent] Get LIPID MAPS Structure entry content(s) for 1 id(s)...
biodb.TRACE[2023-04-10 23:21:52.638][cch$loadFileContent] Trying to load 1 files from cache: [1]: "LMFA00000001".
biodb.TRACE[2023-04-10 23:21:52.641][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 23:21:52.645][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA00000001.tsv".
biodb.DEBUG[2023-04-10 23:21:52.648][conn$getEntryContent] 1 LIPID MAPS Structure entry content(s) loaded from cache.
biodb.DEBUG[2023-04-10 23:21:52.684][self$createEntryFromContent] Creating LIPID MAPS Structure entries from 1 content(s).
biodb.DEBUG[2023-04-10 23:21:52.687][self$createEntryFromContent] Parsing 1 LIPID MAPS Structure entries.
biodb.DEBUG[2023-04-10 23:21:52.690][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 23:21:52.692][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:21:52.694][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:21:52.706][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:52.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:52.710][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:52.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 23:21:52.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:21:52.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:21:52.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:21:52.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:21:52.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.735][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 23:21:52.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 23:21:52.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.744][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 23:21:52.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 23:21:52.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.751][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-04-10 23:21:52.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-04-10 23:21:52.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.760][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 23:21:52.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 23:21:52.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.767][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:21:52.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:21:52.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.776][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:21:52.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:21:52.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.784][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:21:52.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:21:52.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.792][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:21:52.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:21:52.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.800][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-04-10 23:21:52.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:52.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.808][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-04-10 23:21:52.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:52.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.817][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 23:21:52.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 23:21:52.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.825][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 23:21:52.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 23:21:52.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.834][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:21:52.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:52.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.840][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:21:52.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:52.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.846][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-04-10 23:21:52.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:52.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.858][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2023-04-10 23:21:52.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:52.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.863][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:21:52.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:52.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.869][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:21:52.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:52.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.875][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-04-10 23:21:52.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:52.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.881][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:21:52.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:52.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.886][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:21:52.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:52.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.891][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:21:52.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:52.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.898][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:21:52.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:52.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.905][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:21:52.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:52.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.911][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:21:52.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:21:52.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.916][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:21:52.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:21:52.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:21:52.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:21:52.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.929][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:21:52.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:21:52.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:21:52.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:21:52.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.940][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:21:52.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:21:52.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.946][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:21:52.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:21:52.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.951][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:21:52.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:21:52.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.956][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:21:52.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:21:52.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.961][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:21:52.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:21:52.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 23:21:52.966][self$createEntryFromContent] Accession numbers: LMFA00000001.
biodb.TRACE[2023-04-10 23:21:52.968][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2023-04-10 23:21:52.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2023-04-10 23:21:52.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.973][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2023-04-10 23:21:52.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2023-04-10 23:21:52.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:52.978][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2023-04-10 23:21:52.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2023-04-10 23:21:52.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:52.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-04-10 23:21:52.993][biodb::testThat]
biodb.INFO [2023-04-10 23:21:52.995][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2023-04-10 23:21:52.996][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 23:21:52.997][biodb::testThat]
biodb.TRACE[2023-04-10 23:21:53.001][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:21:53.002][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:53.004][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:53.005][ef$get] fields variable is a list.
biodb.DEBUG[2023-04-10 23:21:53.007][function(conn, opt)] Testing searchForEntries() with entry "LMFA00000001" and field "name".
biodb.TRACE[2023-04-10 23:21:53.039][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:21:53.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:53.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:53.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:53.044][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:21:53.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:53.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:53.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:53.050][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:21:53.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:53.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:53.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 23:21:53.057][function(conn, opt)] With value "2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride".
biodb.DEBUG[2023-04-10 23:21:53.234][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[2023-04-10 23:21:53.253][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 23:21:53.276][cch$loadFileContent] Trying to load 1 files from cache: [1]: "e8702bf6dc5a5afd048f747914fd7a6a".
biodb.TRACE[2023-04-10 23:21:53.280][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 23:21:53.293][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.content".
biodb.DEBUG[2023-04-10 23:21:53.295][function(conn, opt)] With found IDs [1]: "LMFA00000001".
biodb.TRACE[2023-04-10 23:21:53.314][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:53.316][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:53.317][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:53.318][ef$get] fields variable is a list.
biodb.INFO [2023-04-10 23:21:53.321][biodb::testThat]
biodb.INFO [2023-04-10 23:21:53.328][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2023-04-10 23:21:53.329][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 23:21:53.331][biodb::testThat]
biodb.TRACE[2023-04-10 23:21:53.358][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:21:53.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:53.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:53.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:53.363][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:21:53.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:53.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:53.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:53.368][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:21:53.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:53.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:53.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 23:21:53.477][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[2023-04-10 23:21:53.486][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 23:21:53.488][cch$loadFileContent] Trying to load 1 files from cache: [1]: "e8702bf6dc5a5afd048f747914fd7a6a".
biodb.TRACE[2023-04-10 23:21:53.489][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 23:21:53.492][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.content".
biodb.INFO [2023-04-10 23:21:53.512][biodb::testThat]
biodb.INFO [2023-04-10 23:21:53.514][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2023-04-10 23:21:53.515][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 23:21:53.516][biodb::testThat]
biodb.TRACE[2023-04-10 23:21:53.538][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-04-10 23:21:53.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-04-10 23:21:53.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:53.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:53.543][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-04-10 23:21:53.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-04-10 23:21:53.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:53.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:53.548][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-04-10 23:21:53.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-04-10 23:21:53.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:53.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:53.553][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-04-10 23:21:53.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-04-10 23:21:53.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:53.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:53.592][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-04-10 23:21:53.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-04-10 23:21:53.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:53.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:53.598][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-04-10 23:21:53.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-04-10 23:21:53.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:53.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:53.602][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-04-10 23:21:53.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-04-10 23:21:53.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:53.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:53.607][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-04-10 23:21:53.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-04-10 23:21:53.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:53.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-04-10 23:21:53.615][biodb::testThat]
biodb.INFO [2023-04-10 23:21:53.616][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2023-04-10 23:21:53.618][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 23:21:53.619][biodb::testThat]
biodb.INFO [2023-04-10 23:21:53.625][biodb::testThat]
biodb.INFO [2023-04-10 23:21:53.627][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2023-04-10 23:21:53.628][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 23:21:53.629][biodb::testThat]
biodb.INFO [2023-04-10 23:21:53.635][biodb::testThat]
biodb.INFO [2023-04-10 23:21:53.636][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2023-04-10 23:21:53.637][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 23:21:53.638][biodb::testThat]
biodb.DEBUG[2023-04-10 23:21:53.642][function(conn, opt)] Trying to download "https://www.lipidmaps.org/data?LMID=LMFA00000001".
biodb.DEBUG[2023-04-10 23:21:54.518][getUrlContent] Use base::url() for downloading content of URL https://www.lipidmaps.org/data?LMID=LMFA00000001.
biodb.INFO [2023-04-10 23:21:55.423][biodb::testThat]
biodb.INFO [2023-04-10 23:21:55.426][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2023-04-10 23:21:55.428][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 23:21:55.430][biodb::testThat]
biodb.TRACE[2023-04-10 23:21:55.437][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:21:55.439][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:55.441][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:55.443][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:55.445][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:55.447][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:55.448][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:55.450][ef$get] fields variable is a list.
biodb.INFO [2023-04-10 23:21:55.453][biodb::testThat]
biodb.INFO [2023-04-10 23:21:55.455][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2023-04-10 23:21:55.457][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 23:21:55.459][biodb::testThat]
biodb.TRACE[2023-04-10 23:21:55.482][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:21:55.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:55.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:55.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:55.489][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:21:55.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:55.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:55.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:55.497][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:21:55.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:21:55.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:55.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 23:21:55.772][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[2023-04-10 23:21:55.776][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 23:21:55.778][cch$loadFileContent] Trying to load 1 files from cache: [1]: "e8702bf6dc5a5afd048f747914fd7a6a".
biodb.TRACE[2023-04-10 23:21:55.780][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 23:21:55.782][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.content".
biodb.DEBUG[2023-04-10 23:21:55.942][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[2023-04-10 23:21:55.946][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 23:21:55.948][cch$loadFileContent] Trying to load 1 files from cache: [1]: "e8702bf6dc5a5afd048f747914fd7a6a".
biodb.TRACE[2023-04-10 23:21:55.950][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 23:21:55.952][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/e8702bf6dc5a5afd048f747914fd7a6a.content".
biodb.TRACE[2023-04-10 23:21:55.975][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-04-10 23:21:55.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-04-10 23:21:55.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:55.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:55.988][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 23:21:55.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 23:21:55.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:55.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:56.000][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:56.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:56.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:56.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:56.006][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:56.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:56.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:56.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:56.012][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:56.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:56.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:56.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:56.017][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:56.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:56.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:56.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:56.023][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:56.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:56.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:56.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 23:21:56.062][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[2023-04-10 23:21:56.066][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 23:21:56.068][cch$loadFileContent] Trying to load 1 files from cache: [1]: "304383a7dc8c451be84009e31d831359".
biodb.TRACE[2023-04-10 23:21:56.070][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 23:21:56.353][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/304383a7dc8c451be84009e31d831359.content".
biodb.DEBUG[2023-04-10 23:21:57.959][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[2023-04-10 23:21:57.963][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 23:21:57.965][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7f71825f1888a7b29e4b8407502d21e3".
biodb.TRACE[2023-04-10 23:21:57.967][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 23:21:57.970][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/7f71825f1888a7b29e4b8407502d21e3.content".
biodb.DEBUG[2023-04-10 23:21:58.024][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[2023-04-10 23:21:58.028][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 23:21:58.030][cch$loadFileContent] Trying to load 1 files from cache: [1]: "fd41c675dd237f33cdaafcbb15058c54".
biodb.TRACE[2023-04-10 23:21:58.032][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 23:21:58.036][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/fd41c675dd237f33cdaafcbb15058c54.content".
biodb.TRACE[2023-04-10 23:21:58.062][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-04-10 23:21:58.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-04-10 23:21:58.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:58.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-04-10 23:21:58.075][biodb::testThat]
biodb.INFO [2023-04-10 23:21:58.077][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2023-04-10 23:21:58.079][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 23:21:58.081][biodb::testThat]
biodb.TRACE[2023-04-10 23:21:58.085][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-04-10 23:21:58.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-04-10 23:21:58.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:58.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:58.127][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 23:21:58.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 23:21:58.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:58.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:58.133][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:58.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:58.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:58.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:58.138][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:58.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:58.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:58.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:58.143][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:58.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:58.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:58.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:21:58.148][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:58.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:21:58.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:21:58.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 23:21:58.157][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 23:21:58.158][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:21:58.159][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:21:58.167][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:21:58.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:21:58.169][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:21:58.171][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:21:58.293][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[2023-04-10 23:21:58.299][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 23:21:58.302][cch$loadFileContent] Trying to load 1 files from cache: [1]: "f4acf835cb23946f08f684530aa686a3".
biodb.TRACE[2023-04-10 23:21:58.304][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 23:21:58.667][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f4acf835cb23946f08f684530aa686a3.content".
biodb.DEBUG[2023-04-10 23:22:00.370][private$loadEntries] Creating entries from ids [2]: "LMFA00000002, LMFA00000003".
biodb.DEBUG[2023-04-10 23:22:00.412][conn$getEntryContent] Get LIPID MAPS Structure entry content(s) for 2 id(s)...
biodb.TRACE[2023-04-10 23:22:00.415][cch$loadFileContent] Trying to load 2 files from cache: [2]: "LMFA00000002, LMFA00000003".
biodb.TRACE[2023-04-10 23:22:00.417][cch$loadFileContent] file.exist = [2]: "TRUE, TRUE".
biodb.TRACE[2023-04-10 23:22:00.557][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[2023-04-10 23:22:00.559][conn$getEntryContent] 2 LIPID MAPS Structure entry content(s) loaded from cache.
biodb.DEBUG[2023-04-10 23:22:00.561][self$createEntryFromContent] Creating LIPID MAPS Structure entries from 2 content(s).
biodb.DEBUG[2023-04-10 23:22:00.562][self$createEntryFromContent] Parsing 2 LIPID MAPS Structure entries.
biodb.DEBUG[2023-04-10 23:22:00.564][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 23:22:00.565][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:00.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:00.574][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:00.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:00.576][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:00.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 23:22:00.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:00.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:00.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:00.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:00.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.592][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 23:22:00.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 23:22:00.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.597][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 23:22:00.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 23:22:00.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.604][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-04-10 23:22:00.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-04-10 23:22:00.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.609][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 23:22:00.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 23:22:00.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.614][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:00.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:00.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.619][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:00.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:00.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.624][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:00.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:00.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.629][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:00.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:00.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.634][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-04-10 23:22:00.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:00.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.639][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-04-10 23:22:00.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:00.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.644][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 23:22:00.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 23:22:00.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.649][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 23:22:00.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 23:22:00.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.655][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:00.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:00.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.660][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:00.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:00.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.666][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-04-10 23:22:00.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:00.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.672][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2023-04-10 23:22:00.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:00.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.678][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:00.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:00.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.683][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:00.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:00.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.690][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-04-10 23:22:00.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:00.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.695][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:00.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:00.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.701][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:00.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:00.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.707][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:00.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:00.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.713][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:00.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:00.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:00.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:00.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:00.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:00.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.730][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:00.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:00.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 23:22:00.736][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 23:22:00.737][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:00.739][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:00.747][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:00.748][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:00.750][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:00.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 23:22:00.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:00.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:00.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.762][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:00.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:00.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.768][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 23:22:00.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 23:22:00.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.774][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-04-10 23:22:00.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-04-10 23:22:00.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.780][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 23:22:00.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 23:22:00.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.787][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:00.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:00.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.792][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:00.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:00.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.799][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:00.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:00.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.804][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:00.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:00.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.810][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-04-10 23:22:00.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:00.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.816][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-04-10 23:22:00.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:00.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.822][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 23:22:00.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 23:22:00.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.842][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 23:22:00.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 23:22:00.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.847][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:00.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:00.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.852][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:00.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:00.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.857][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-04-10 23:22:00.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:00.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.862][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2023-04-10 23:22:00.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:00.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.867][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:00.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:00.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.872][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:00.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:00.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.877][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-04-10 23:22:00.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:00.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.882][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:00.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:00.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.887][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:00.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:00.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.892][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:00.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:00.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.896][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:00.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:00.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:00.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:00.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.906][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:00.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:00.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.911][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:00.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:00.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.917][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:00.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:00.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.922][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:00.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:00.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.927][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:00.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:00.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.932][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:00.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:00.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.936][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:00.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:00.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.941][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:00.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:00.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 23:22:00.946][self$createEntryFromContent] Accession numbers: LMFA00000002, LMFA00000003.
biodb.DEBUG[2023-04-10 23:22:00.954][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-04-10 23:22:00.956][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 23:22:00.957][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:00.959][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:00.966][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:00.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:00.968][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:00.969][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.TRACE[2023-04-10 23:22:00.971][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:00.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:00.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.977][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:00.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:00.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.982][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:00.983][private$selectFields]
biodb.TRACE[2023-04-10 23:22:00.984][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-04-10 23:22:00.986][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-04-10 23:22:00.987][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:00.988][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:00.989][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:00.990][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.992][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.993][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:00.994][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:00.995][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:00.997][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:00.998][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:00.999][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:01.000][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.002][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.003][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:01.004][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:01.005][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-04-10 23:22:01.006][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:01.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:01.011][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:01.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:01.016][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:01.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:01.029][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2023-04-10 23:22:01.030][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 23:22:01.031][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:01.032][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:01.040][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:01.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:01.042][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:01.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 23:22:01.045][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:01.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:01.050][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:01.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:01.055][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:01.056][private$selectFields]
biodb.TRACE[2023-04-10 23:22:01.057][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-04-10 23:22:01.058][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-04-10 23:22:01.059][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:01.061][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.062][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.063][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:01.064][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:01.065][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.067][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.068][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:01.069][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:01.070][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:01.072][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:01.073][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.074][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.075][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:01.076][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:01.078][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-04-10 23:22:01.079][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:01.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:01.084][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:01.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:01.089][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:01.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:01.094][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2023-04-10 23:22:01.096][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 23:22:01.097][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:01.098][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:01.106][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:01.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:01.109][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:01.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 23:22:01.112][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:01.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:01.117][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:01.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:01.122][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:01.123][private$selectFields]
biodb.TRACE[2023-04-10 23:22:01.124][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-04-10 23:22:01.125][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-04-10 23:22:01.126][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:01.127][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.129][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.130][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:01.131][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:01.132][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.133][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.135][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:01.136][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:01.137][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:01.138][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:01.139][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.141][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.142][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:01.143][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:01.145][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-04-10 23:22:01.146][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:01.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:01.164][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:01.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:01.169][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:01.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:01.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:01.174][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2023-04-10 23:22:01.175][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-04-10 23:22:01.177][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-04-10 23:22:01.188][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-04-10 23:22:01.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-04-10 23:22:01.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:01.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-04-10 23:22:01.194][biodb::testThat]
biodb.INFO [2023-04-10 23:22:01.196][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2023-04-10 23:22:01.197][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 23:22:01.198][biodb::testThat]
biodb.TRACE[2023-04-10 23:22:01.202][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-04-10 23:22:01.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-04-10 23:22:01.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:01.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:01.207][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 23:22:01.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 23:22:01.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:01.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:01.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:01.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:01.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:01.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:01.217][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:01.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:01.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:01.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:01.221][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:01.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:01.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:01.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:01.226][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:01.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:01.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:01.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 23:22:01.276][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 23:22:01.277][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:01.279][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:01.286][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:01.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:01.288][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:01.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:01.394][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[2023-04-10 23:22:01.398][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 23:22:01.400][cch$loadFileContent] Trying to load 1 files from cache: [1]: "5652f5994fce967a05a065a71bac3ed6".
biodb.TRACE[2023-04-10 23:22:01.402][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 23:22:01.661][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/5652f5994fce967a05a065a71bac3ed6.content".
biodb.DEBUG[2023-04-10 23:22:03.510][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-04-10 23:22:03.542][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 23:22:03.544][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:03.546][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:03.557][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:03.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:03.561][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:03.563][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.TRACE[2023-04-10 23:22:03.581][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:03.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:03.588][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:03.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:03.622][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:03.625][private$selectFields]
biodb.TRACE[2023-04-10 23:22:03.626][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-04-10 23:22:03.628][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-04-10 23:22:03.630][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:03.632][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.634][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.636][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:03.637][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:03.639][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.641][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.643][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:03.644][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:03.646][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:03.661][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:03.663][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.665][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.667][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:03.668][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:03.670][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-04-10 23:22:03.672][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:03.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:03.680][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:03.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:03.687][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:03.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:03.694][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2023-04-10 23:22:03.696][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 23:22:03.698][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:03.699][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:03.710][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:03.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:03.714][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:03.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 23:22:03.717][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:03.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:03.725][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:03.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:03.732][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:03.734][private$selectFields]
biodb.TRACE[2023-04-10 23:22:03.735][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-04-10 23:22:03.737][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-04-10 23:22:03.739][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:03.741][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.742][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.744][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:03.746][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:03.747][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.749][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.751][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:03.753][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:03.754][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:03.756][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:03.758][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.760][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.761][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:03.763][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:03.765][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-04-10 23:22:03.767][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:03.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:03.774][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:03.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:03.781][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:03.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:03.788][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2023-04-10 23:22:03.791][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 23:22:03.792][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:03.794][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:03.805][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:03.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:03.809][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:03.811][FUN] Functions in observer BiodbConfig: [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[2023-04-10 23:22:03.813][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:03.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:03.822][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:03.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:03.829][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:03.831][private$selectFields]
biodb.TRACE[2023-04-10 23:22:03.833][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-04-10 23:22:03.835][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-04-10 23:22:03.837][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:03.839][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.841][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.842][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:03.844][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:03.846][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.848][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.849][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:03.851][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:03.853][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:03.854][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:03.856][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.858][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.860][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:03.895][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:03.897][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-04-10 23:22:03.899][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:03.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:03.907][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:03.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:03.914][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:03.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:03.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:03.921][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2023-04-10 23:22:03.924][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-04-10 23:22:03.926][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-04-10 23:22:03.940][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-04-10 23:22:03.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-04-10 23:22:03.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:03.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-04-10 23:22:03.949][biodb::testThat]
biodb.INFO [2023-04-10 23:22:03.951][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2023-04-10 23:22:03.953][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 23:22:03.955][biodb::testThat]
biodb.TRACE[2023-04-10 23:22:03.960][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-04-10 23:22:03.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-04-10 23:22:03.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:03.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:03.968][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2023-04-10 23:22:03.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2023-04-10 23:22:03.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:03.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:03.975][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:03.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:03.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:03.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:03.982][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:03.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:03.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:03.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:03.989][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:03.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:03.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:03.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:03.996][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:03.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:03.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:04.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 23:22:04.008][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 23:22:04.010][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:04.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:04.022][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:04.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:04.025][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:04.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:04.150][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[2023-04-10 23:22:04.153][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 23:22:04.155][cch$loadFileContent] Trying to load 1 files from cache: [1]: "f4acf835cb23946f08f684530aa686a3".
biodb.TRACE[2023-04-10 23:22:04.157][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 23:22:04.291][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/f4acf835cb23946f08f684530aa686a3.content".
biodb.DEBUG[2023-04-10 23:22:06.089][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2023-04-10 23:22:06.092][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 23:22:06.095][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:06.097][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:06.105][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:06.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:06.108][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:06.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 23:22:06.110][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.116][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.121][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:06.122][private$selectFields]
biodb.TRACE[2023-04-10 23:22:06.123][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-04-10 23:22:06.124][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-04-10 23:22:06.125][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:06.127][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.128][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.129][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.130][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.132][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.133][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.134][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.135][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.137][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:06.138][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:06.139][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.140][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.141][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.143][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.144][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-04-10 23:22:06.145][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.150][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.155][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.161][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000001].
biodb.DEBUG[2023-04-10 23:22:06.163][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 23:22:06.164][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:06.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:06.173][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:06.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:06.176][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:06.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 23:22:06.179][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.184][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.190][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:06.192][private$selectFields]
biodb.TRACE[2023-04-10 23:22:06.193][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-04-10 23:22:06.195][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-04-10 23:22:06.196][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:06.198][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.200][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.201][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.203][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.204][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.206][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.207][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.209][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.211][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:06.212][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:06.214][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.215][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.217][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.218][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.220][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-04-10 23:22:06.222][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.228][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.234][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.241][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000002].
biodb.DEBUG[2023-04-10 23:22:06.243][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 23:22:06.244][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:06.246][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:06.255][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:06.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:06.259][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:06.260][FUN] Functions in observer BiodbConfig: [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[2023-04-10 23:22:06.262][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.268][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.274][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:06.275][private$selectFields]
biodb.TRACE[2023-04-10 23:22:06.276][private$selectFields] Fields is null: FALSE
biodb.TRACE[2023-04-10 23:22:06.277][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-04-10 23:22:06.279][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:06.280][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.281][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.282][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.284][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.285][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.286][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.287][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.289][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.290][private$selectFields] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:06.291][private$organizeFieldsByGroups] Fields [1]: "lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:06.292][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.294][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.295][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.296][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.298][private$organizeFieldsByGroups] Groups [2]: "lipidmaps.structure.id, list()"
biodb.TRACE[2023-04-10 23:22:06.299][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.304][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.309][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.314][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [lipidmaps.structure.id] [LMFA00000003].
biodb.DEBUG[2023-04-10 23:22:06.316][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2023-04-10 23:22:06.317][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2023-04-10 23:22:06.345][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2023-04-10 23:22:06.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2023-04-10 23:22:06.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-04-10 23:22:06.352][biodb::testThat]
biodb.INFO [2023-04-10 23:22:06.353][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2023-04-10 23:22:06.354][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 23:22:06.356][biodb::testThat]
biodb.DEBUG[2023-04-10 23:22:06.358][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2023-04-10 23:22:06.359][conn$getEntryContent] Get LIPID MAPS Structure entry content(s) for 1 id(s)...
biodb.TRACE[2023-04-10 23:22:06.361][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2023-04-10 23:22:06.364][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 23:22:06.366][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/WRONGA.tsv".
biodb.DEBUG[2023-04-10 23:22:06.367][conn$getEntryContent] 1 LIPID MAPS Structure entry content(s) loaded from cache.
biodb.DEBUG[2023-04-10 23:22:06.369][self$createEntryFromContent] Creating LIPID MAPS Structure entries from 1 content(s).
biodb.DEBUG[2023-04-10 23:22:06.370][self$createEntryFromContent] Parsing 1 LIPID MAPS Structure entries.
biodb.DEBUG[2023-04-10 23:22:06.372][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 23:22:06.373][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:06.374][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:06.382][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:06.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:06.385][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:06.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 23:22:06.388][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.393][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.398][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:06.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:06.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.403][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:06.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:06.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.408][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:06.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:06.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:06.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:06.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.419][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:06.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:06.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:06.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:06.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 23:22:06.429][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2023-04-10 23:22:06.430][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2023-04-10 23:22:06.438][biodb::testThat]
biodb.INFO [2023-04-10 23:22:06.440][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2023-04-10 23:22:06.441][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 23:22:06.442][biodb::testThat]
biodb.DEBUG[2023-04-10 23:22:06.466][function(conn, opt)] IDS: [4]: "WRONGB, LMFA00000001, LMFA00000002, LMFA08040013"
biodb.DEBUG[2023-04-10 23:22:06.467][private$loadEntries] Creating entries from ids [2]: "WRONGB, LMFA08040013".
biodb.DEBUG[2023-04-10 23:22:06.469][conn$getEntryContent] Get LIPID MAPS Structure entry content(s) for 2 id(s)...
biodb.TRACE[2023-04-10 23:22:06.471][cch$loadFileContent] Trying to load 2 files from cache: [2]: "WRONGB, LMFA08040013".
biodb.TRACE[2023-04-10 23:22:06.472][cch$loadFileContent] file.exist = [2]: "TRUE, TRUE".
biodb.TRACE[2023-04-10 23:22:06.484][loadFileContents] Loaded 2 files from cache: [2]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/WRONGB.tsv, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/LMFA08040013.tsv".
biodb.DEBUG[2023-04-10 23:22:06.487][conn$getEntryContent] 2 LIPID MAPS Structure entry content(s) loaded from cache.
biodb.DEBUG[2023-04-10 23:22:06.489][self$createEntryFromContent] Creating LIPID MAPS Structure entries from 2 content(s).
biodb.DEBUG[2023-04-10 23:22:06.491][self$createEntryFromContent] Parsing 2 LIPID MAPS Structure entries.
biodb.DEBUG[2023-04-10 23:22:06.494][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 23:22:06.496][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:06.497][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:06.509][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:06.510][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:06.512][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:06.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 23:22:06.517][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.525][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.533][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:06.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:06.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 23:22:06.540][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 23:22:06.542][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:06.544][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:06.555][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:06.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:06.558][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:06.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 23:22:06.564][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:06.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:06.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.570][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:06.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:06.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.575][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 23:22:06.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 23:22:06.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.580][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 23:22:06.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 23:22:06.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.587][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-04-10 23:22:06.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-04-10 23:22:06.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.592][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-04-10 23:22:06.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-04-10 23:22:06.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.598][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 23:22:06.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 23:22:06.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.605][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 23:22:06.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 23:22:06.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.610][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:06.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:06.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.616][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:06.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:06.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.621][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:06.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:06.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.626][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:06.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:06.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.633][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-04-10 23:22:06.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:06.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.639][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-04-10 23:22:06.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:06.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.645][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 23:22:06.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 23:22:06.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.650][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 23:22:06.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 23:22:06.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.655][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:06.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:06.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.661][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:06.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:06.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.666][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-04-10 23:22:06.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:06.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.672][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2023-04-10 23:22:06.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:06.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.679][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:06.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:06.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.686][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:06.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:06.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.695][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-04-10 23:22:06.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:06.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.702][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:06.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:06.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.707][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:06.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:06.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.712][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:06.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:06.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.717][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:06.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:06.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.721][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:06.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:06.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.726][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.732][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:06.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:06.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.746][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:06.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.752][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:06.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:06.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:06.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:06.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:06.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:06.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.768][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:06.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:06.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:06.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:06.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.780][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:06.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:06.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.785][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:06.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:06.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:06.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:06.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.796][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:06.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:06.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.801][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:06.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:06.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:06.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:06.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:06.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:06.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 23:22:06.811][self$createEntryFromContent] Accession numbers: NA, LMFA08040013.
biodb.DEBUG[2023-04-10 23:22:06.813][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2023-04-10 23:22:06.814][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2023-04-10 23:22:06.831][biodb::testThat]
biodb.INFO [2023-04-10 23:22:06.832][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2023-04-10 23:22:06.833][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 23:22:06.835][biodb::testThat]
biodb.INFO [2023-04-10 23:22:06.903][biodb::testThat]
biodb.INFO [2023-04-10 23:22:06.905][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2023-04-10 23:22:06.906][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 23:22:06.907][biodb::testThat]
biodb.INFO [2023-04-10 23:22:06.918][biodb::testThat]
biodb.INFO [2023-04-10 23:22:06.920][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2023-04-10 23:22:06.922][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 23:22:06.924][biodb::testThat]
biodb.DEBUG[2023-04-10 23:22:07.030][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[2023-04-10 23:22:07.035][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 23:22:07.036][cch$loadFileContent] Trying to load 1 files from cache: [1]: "13e15253cf65619ae7a700f5534f6030".
biodb.TRACE[2023-04-10 23:22:07.038][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 23:22:07.294][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/13e15253cf65619ae7a700f5534f6030.content".
biodb.TRACE[2023-04-10 23:22:08.909][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:08.911][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:08.912][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:08.913][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:08.915][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:08.916][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:08.918][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:08.919][ef$get] fields variable is a list.
biodb.INFO [2023-04-10 23:22:08.921][biodb::testThat]
biodb.INFO [2023-04-10 23:22:08.923][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2023-04-10 23:22:08.924][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 23:22:08.925][biodb::testThat]
biodb.ERROR[2023-04-10 23:22:08.945][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2023-04-10 23:22:08.970][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2023-04-10 23:22:08.985][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-04-10 23:22:08.987][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector lipidmaps.structure from the request scheduler
biodb.INFO [2023-04-10 23:22:08.988][self$deleteConn] Connector "lipidmaps.structure" deleted.
biodb.DEBUG[2023-04-10 23:22:08.989][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-04-10 23:22:08.990][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:08.992][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:08.993][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:08.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:08.995][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:08.996][FUN] Functions in observer BiodbConfig: [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 [2023-04-10 23:22:09.008][biodb::testContext]
biodb.INFO [2023-04-10 23:22:09.009][biodb::testContext] ********************************************************************************
biodb.INFO [2023-04-10 23:22:09.011][biodb::testContext] Test context - Web services tests
biodb.INFO [2023-04-10 23:22:09.012][biodb::testContext] ********************************************************************************
biodb.INFO [2023-04-10 23:22:09.013][biodb::testContext]
biodb.INFO [2023-04-10 23:22:09.017][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.6.1.
biodb.DEBUG[2023-04-10 23:22:09.020][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.16-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2023-04-10 23:22:09.027][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-04-10 23:22:09.029][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-04-10 23:22:09.030][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-04-10 23:22:09.032][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.036][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-04-10 23:22:09.037][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-04-10 23:22:09.039][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.043][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-04-10 23:22:09.044][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-04-10 23:22:09.045][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.049][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-04-10 23:22:09.050][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-04-10 23:22:09.051][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-04-10 23:22:09.052][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.056][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-04-10 23:22:09.057][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-04-10 23:22:09.058][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-04-10 23:22:09.060][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.063][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-04-10 23:22:09.065][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-04-10 23:22:09.066][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.068][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.069][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-04-10 23:22:09.071][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-04-10 23:22:09.072][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-04-10 23:22:09.073][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.077][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-04-10 23:22:09.078][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-04-10 23:22:09.079][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.084][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-04-10 23:22:09.086][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-04-10 23:22:09.088][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-04-10 23:22:09.090][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.093][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.095][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-04-10 23:22:09.096][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-04-10 23:22:09.098][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-04-10 23:22:09.100][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-04-10 23:22:09.101][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-04-10 23:22:09.103][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-04-10 23:22:09.105][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.109][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-04-10 23:22:09.110][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-04-10 23:22:09.111][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.116][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-04-10 23:22:09.117][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-04-10 23:22:09.119][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.122][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-04-10 23:22:09.124][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-04-10 23:22:09.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.129][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-04-10 23:22:09.130][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-04-10 23:22:09.131][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.135][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-04-10 23:22:09.136][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-04-10 23:22:09.137][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.141][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-04-10 23:22:09.143][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-04-10 23:22:09.147][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-04-10 23:22:09.148][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.151][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-04-10 23:22:09.153][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-04-10 23:22:09.154][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-04-10 23:22:09.155][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.159][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-04-10 23:22:09.161][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-04-10 23:22:09.163][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-04-10 23:22:09.164][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:09.165][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-04-10 23:22:09.167][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:09.168][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-04-10 23:22:09.170][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-04-10 23:22:09.171][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-04-10 23:22:09.172][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-04-10 23:22:09.174][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-04-10 23:22:09.175][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:09.176][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-04-10 23:22:09.178][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-04-10 23:22:09.179][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:22:09.180][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:09.182][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-04-10 23:22:09.182][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-04-10 23:22:09.182][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-04-10 23:22:09.182][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-04-10 23:22:09.182][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-04-10 23:22:09.183][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-04-10 23:22:09.184][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 23:22:09.185][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 23:22:09.187][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-04-10 23:22:09.188][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 23:22:09.189][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 23:22:09.191][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-04-10 23:22:09.192][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:22:09.193][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-04-10 23:22:09.194][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-04-10 23:22:09.195][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-04-10 23:22:09.197][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:22:09.198][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-04-10 23:22:09.200][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-04-10 23:22:09.202][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-04-10 23:22:09.203][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:09.204][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-04-10 23:22:09.206][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:09.207][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-04-10 23:22:09.208][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-04-10 23:22:09.209][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-04-10 23:22:09.211][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-04-10 23:22:09.212][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-04-10 23:22:09.213][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:09.214][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-04-10 23:22:09.216][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-04-10 23:22:09.217][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:22:09.218][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:09.220][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-04-10 23:22:09.220][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-04-10 23:22:09.220][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-04-10 23:22:09.220][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-04-10 23:22:09.220][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-04-10 23:22:09.221][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-04-10 23:22:09.222][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 23:22:09.223][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 23:22:09.225][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-04-10 23:22:09.226][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 23:22:09.227][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 23:22:09.228][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-04-10 23:22:09.230][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:22:09.231][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-04-10 23:22:09.232][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-04-10 23:22:09.233][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-04-10 23:22:09.235][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:22:09.236][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-04-10 23:22:09.239][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:09.240][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-04-10 23:22:09.242][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:09.243][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-04-10 23:22:09.244][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:09.245][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-04-10 23:22:09.246][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-04-10 23:22:09.248][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-04-10 23:22:09.249][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-04-10 23:22:09.251][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-04-10 23:22:09.252][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-04-10 23:22:09.254][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-04-10 23:22:09.255][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-04-10 23:22:09.256][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:22:09.258][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:09.259][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:22:09.260][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-04-10 23:22:09.276][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 23:22:09.277][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 23:22:09.278][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-04-10 23:22:09.280][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 23:22:09.281][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 23:22:09.282][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-04-10 23:22:09.284][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:22:09.285][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-04-10 23:22:09.286][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-04-10 23:22:09.287][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-04-10 23:22:09.289][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:22:09.290][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-04-10 23:22:09.292][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:09.294][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-04-10 23:22:09.295][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:09.296][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-04-10 23:22:09.298][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:09.299][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-04-10 23:22:09.300][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-04-10 23:22:09.301][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-04-10 23:22:09.303][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-04-10 23:22:09.304][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-04-10 23:22:09.305][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-04-10 23:22:09.307][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-04-10 23:22:09.308][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-04-10 23:22:09.309][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:22:09.311][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:09.312][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:22:09.313][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-04-10 23:22:09.314][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 23:22:09.315][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 23:22:09.317][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-04-10 23:22:09.318][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 23:22:09.319][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 23:22:09.320][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-04-10 23:22:09.322][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:22:09.323][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-04-10 23:22:09.324][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-04-10 23:22:09.325][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-04-10 23:22:09.326][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:22:09.328][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-04-10 23:22:09.329][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.332][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:09.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:09.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.338][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:09.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:09.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.342][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.344][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:09.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:09.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.350][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:09.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:09.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.356][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:09.358][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:09.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.363][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:09.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:09.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.369][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:09.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:09.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.375][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:09.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:09.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.382][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:09.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:09.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.388][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:09.391][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:09.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.395][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:09.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:09.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.402][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:09.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:09.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:09.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:09.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.414][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:09.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:09.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:09.424][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:09.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.427][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:09.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:09.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:09.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:09.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.438][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[2023-04-10 23:22:09.439][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-04-10 23:22:09.441][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-04-10 23:22:09.443][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-04-10 23:22:09.445][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-04-10 23:22:09.447][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-04-10 23:22:09.448][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-04-10 23:22:09.450][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-04-10 23:22:09.452][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-04-10 23:22:09.454][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-04-10 23:22:09.456][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-04-10 23:22:09.457][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-04-10 23:22:09.459][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-04-10 23:22:09.461][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-04-10 23:22:09.462][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-04-10 23:22:09.464][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-04-10 23:22:09.466][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-04-10 23:22:09.467][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-04-10 23:22:09.469][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-04-10 23:22:09.471][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-04-10 23:22:09.473][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-04-10 23:22:09.476][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-04-10 23:22:09.478][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-04-10 23:22:09.481][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-04-10 23:22:09.484][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-04-10 23:22:09.486][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-04-10 23:22:09.489][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-04-10 23:22:09.491][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-04-10 23:22:09.494][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-04-10 23:22:09.496][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-04-10 23:22:09.499][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-04-10 23:22:09.501][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-04-10 23:22:09.503][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-04-10 23:22:09.506][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-04-10 23:22:09.508][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-04-10 23:22:09.511][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-04-10 23:22:09.513][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-04-10 23:22:09.516][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-04-10 23:22:09.518][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-04-10 23:22:09.521][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-04-10 23:22:09.523][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-04-10 23:22:09.526][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-04-10 23:22:09.528][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-04-10 23:22:09.531][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-04-10 23:22:09.533][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-04-10 23:22:09.536][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-04-10 23:22:09.538][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-04-10 23:22:09.541][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-04-10 23:22:09.543][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-04-10 23:22:09.546][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-04-10 23:22:09.548][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-04-10 23:22:09.551][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-04-10 23:22:09.554][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-04-10 23:22:09.556][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-04-10 23:22:09.559][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-04-10 23:22:09.562][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-04-10 23:22:09.564][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-04-10 23:22:09.567][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-04-10 23:22:09.570][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-04-10 23:22:09.572][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-04-10 23:22:09.575][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-04-10 23:22:09.577][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-04-10 23:22:09.580][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-04-10 23:22:09.582][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-04-10 23:22:09.585][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-04-10 23:22:09.587][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-04-10 23:22:09.590][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-04-10 23:22:09.592][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-04-10 23:22:09.595][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-04-10 23:22:09.597][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-04-10 23:22:09.600][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-04-10 23:22:09.602][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-04-10 23:22:09.605][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-04-10 23:22:09.607][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-04-10 23:22:09.608][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-04-10 23:22:09.610][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-04-10 23:22:09.612][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-04-10 23:22:09.613][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-04-10 23:22:09.615][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-04-10 23:22:09.617][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-04-10 23:22:09.618][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-04-10 23:22:09.620][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-04-10 23:22:09.621][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-04-10 23:22:09.623][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-04-10 23:22:09.625][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-04-10 23:22:09.627][initialize] This is biodb version 1.6.1.
biodb.DEBUG[2023-04-10 23:22:09.629][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-04-10 23:22:09.630][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:09.631][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:09.632][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.634][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:09.636][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:09.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:09.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:09.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.656][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:09.658][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:09.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:09.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:09.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.663][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:09.666][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:09.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:09.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:09.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.670][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.671][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:09.673][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:09.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:09.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:09.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.677][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[2023-04-10 23:22:09.679][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:09.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:09.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:09.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:09.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.687][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:09.689][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:09.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:09.692][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:09.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.696][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:09.698][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:09.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:09.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:09.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.702][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.703][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:09.706][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:09.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:09.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:09.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.712][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:09.715][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:09.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:09.717][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:09.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.720][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[2023-04-10 23:22:09.721][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:09.724][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:09.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:09.726][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:09.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.730][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:09.732][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:09.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:09.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:09.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.737][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[2023-04-10 23:22:09.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:09.740][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:09.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:09.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:09.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.745][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:09.747][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:09.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:09.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:09.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.753][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:09.755][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:09.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:09.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:09.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.759][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[2023-04-10 23:22:09.761][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:09.763][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:09.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:09.765][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:09.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.769][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:09.772][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:09.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:09.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:09.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.777][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:09.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:09.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:09.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:09.782][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:09.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:09.784][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:09.787][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.16-bioc/R/library/biodbLipidmaps/definitions.yml".
biodb.DEBUG[2023-04-10 23:22:09.789][self$getDbsInfo()$define] Define connector lipidmaps.structure.
biodb.DEBUG[2023-04-10 23:22:09.791][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-04-10 23:22:09.792][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-04-10 23:22:09.793][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:09.795][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-04-10 23:22:09.796][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:09.797][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-04-10 23:22:09.798][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:09.799][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-04-10 23:22:09.801][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-04-10 23:22:09.802][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-04-10 23:22:09.804][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:09.805][self$setPropertyValue] Setting property "name" to "LIPID MAPS Structure".
biodb.DEBUG[2023-04-10 23:22:09.806][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-04-10 23:22:09.808][self$setPropertyValue] Setting property "parsing.expr" to "LM_ID".
biodb.DEBUG[2023-04-10 23:22:09.808][self$setPropertyValue] Setting property "parsing.expr" to "CHEBI_ID".
biodb.DEBUG[2023-04-10 23:22:09.808][self$setPropertyValue] Setting property "parsing.expr" to "HMDBID".
biodb.DEBUG[2023-04-10 23:22:09.808][self$setPropertyValue] Setting property "parsing.expr" to "KEGG_ID".
biodb.DEBUG[2023-04-10 23:22:09.808][self$setPropertyValue] Setting property "parsing.expr" to "PUBCHEM_COMPOUND_ID".
biodb.DEBUG[2023-04-10 23:22:09.808][self$setPropertyValue] Setting property "parsing.expr" to "SYSTEMATIC_NAME".
biodb.DEBUG[2023-04-10 23:22:09.808][self$setPropertyValue] Setting property "parsing.expr" to "MASS".
biodb.DEBUG[2023-04-10 23:22:09.808][self$setPropertyValue] Setting property "parsing.expr" to "FORMULA".
biodb.DEBUG[2023-04-10 23:22:09.808][self$setPropertyValue] Setting property "parsing.expr" to "COMMON_NAME".
biodb.DEBUG[2023-04-10 23:22:09.809][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-04-10 23:22:09.810][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-04-10 23:22:09.810][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-04-10 23:22:09.811][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-04-10 23:22:09.813][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 23:22:09.814][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 23:22:09.815][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-04-10 23:22:09.816][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 23:22:09.817][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 23:22:09.819][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-04-10 23:22:09.820][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/data/".
biodb.DEBUG[2023-04-10 23:22:09.820][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/databases/lmsd/".
biodb.DEBUG[2023-04-10 23:22:09.821][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-04-10 23:22:09.822][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-04-10 23:22:09.823][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:09.825][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:22:09.826][self$getEntryFields()$define] Define field lipidmaps.structure.id.
biodb.DEBUG[2023-04-10 23:22:09.828][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-04-10 23:22:09.831][initialize] Initialize connector lipidmaps.structure.
biodb.DEBUG[2023-04-10 23:22:09.833][initialize] Register connector lipidmaps.structure with the request scheduler
biodb.DEBUG[2023-04-10 23:22:09.835][private$bdb$getRequestScheduler()$re ...] Register connector lipidmaps.structure.
biodb.DEBUG[2023-04-10 23:22:09.837][private$addConnectorRules] Create new rule for URL "www.lipidmaps.org" of connector "lipidmaps.structure".
biodb.DEBUG[2023-04-10 23:22:09.838][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2023-04-10 23:22:09.840][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2023-04-10 23:22:09.841][rule$addConnector] Connector "lipidmaps.structure" is already listed in rule "www.lipidmaps.org".
biodb.DEBUG[2023-04-10 23:22:09.842][biodb$getFactory()$createConn] Creating new connector lipidmaps.structure for database class lipidmaps.structure .
biodb.INFO [2023-04-10 23:22:09.845][biodb::testThat]
biodb.INFO [2023-04-10 23:22:09.846][biodb::testThat] Running test function  test_wsLmsdRecord_searchByName  (" wsLmsdRecord() can search by name. ").
biodb.INFO [2023-04-10 23:22:09.847][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 23:22:09.849][biodb::testThat]
biodb.DEBUG[2023-04-10 23:22:09.943][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[2023-04-10 23:22:09.949][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 23:22:09.951][cch$loadFileContent] Trying to load 1 files from cache: [1]: "cfd52aa1c2e3525a5defd7b7e8bd8bb8".
biodb.TRACE[2023-04-10 23:22:09.953][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 23:22:09.968][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/cfd52aa1c2e3525a5defd7b7e8bd8bb8.content".
biodb.DEBUG[2023-04-10 23:22:10.130][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[2023-04-10 23:22:10.136][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 23:22:10.139][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4ae22a112f570b93d2a956448ab71bd0".
biodb.TRACE[2023-04-10 23:22:10.142][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 23:22:10.155][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/4ae22a112f570b93d2a956448ab71bd0.content".
biodb.INFO [2023-04-10 23:22:10.171][biodb::testThat]
biodb.INFO [2023-04-10 23:22:10.173][biodb::testThat] Running test function  test_wsLmsdRecord  (" Test web service wsLmsdRecord. ").
biodb.INFO [2023-04-10 23:22:10.175][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 23:22:10.177][biodb::testThat]
biodb.INFO [2023-04-10 23:22:10.222][biodb::testThat]
biodb.INFO [2023-04-10 23:22:10.224][biodb::testThat] Running test function  test_wsLmsdSearch  (" Test web service wsLmsdSearch. ").
biodb.INFO [2023-04-10 23:22:10.225][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 23:22:10.226][biodb::testThat]
biodb.DEBUG[2023-04-10 23:22:10.323][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[2023-04-10 23:22:10.328][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 23:22:10.331][cch$loadFileContent] Trying to load 1 files from cache: [1]: "cb051dd8deddba61124ac06645747646".
biodb.TRACE[2023-04-10 23:22:10.334][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 23:22:10.348][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/cb051dd8deddba61124ac06645747646.content".
biodb.DEBUG[2023-04-10 23:22:10.464][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[2023-04-10 23:22:10.469][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 23:22:10.470][cch$loadFileContent] Trying to load 1 files from cache: [1]: "cb051dd8deddba61124ac06645747646".
biodb.TRACE[2023-04-10 23:22:10.473][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 23:22:10.475][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/cb051dd8deddba61124ac06645747646.content".
biodb.DEBUG[2023-04-10 23:22:10.572][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[2023-04-10 23:22:10.576][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 23:22:10.577][cch$loadFileContent] Trying to load 1 files from cache: [1]: "9edcc233717c530cf0cbf5f73b9c3fc7".
biodb.TRACE[2023-04-10 23:22:10.579][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 23:22:10.585][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/9edcc233717c530cf0cbf5f73b9c3fc7.content".
biodb.DEBUG[2023-04-10 23:22:10.724][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[2023-04-10 23:22:10.729][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 23:22:10.731][cch$loadFileContent] Trying to load 1 files from cache: [1]: "be9130a77f849b73da505cd10830451e".
biodb.TRACE[2023-04-10 23:22:10.733][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 23:22:10.781][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/be9130a77f849b73da505cd10830451e.content".
biodb.DEBUG[2023-04-10 23:22:11.047][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[2023-04-10 23:22:11.051][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 23:22:11.053][cch$loadFileContent] Trying to load 1 files from cache: [1]: "6821b039f49696a2484834eb67daa971".
biodb.TRACE[2023-04-10 23:22:11.054][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 23:22:11.103][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/6821b039f49696a2484834eb67daa971.content".
biodb.INFO [2023-04-10 23:22:11.291][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-04-10 23:22:11.292][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector lipidmaps.structure from the request scheduler
biodb.INFO [2023-04-10 23:22:11.294][self$deleteConn] Connector "lipidmaps.structure" deleted.
biodb.DEBUG[2023-04-10 23:22:11.295][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-04-10 23:22:11.296][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:11.297][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:11.298][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:11.299][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:11.301][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:11.302][FUN] Functions in observer BiodbConfig: [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 [2023-04-10 23:22:11.307][biodb::testContext]
biodb.INFO [2023-04-10 23:22:11.308][biodb::testContext] ********************************************************************************
biodb.INFO [2023-04-10 23:22:11.309][biodb::testContext] Test context - Some other custom tests
biodb.INFO [2023-04-10 23:22:11.310][biodb::testContext] ********************************************************************************
biodb.INFO [2023-04-10 23:22:11.311][biodb::testContext]
biodb.INFO [2023-04-10 23:22:11.314][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.6.1.
biodb.DEBUG[2023-04-10 23:22:11.316][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.16-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2023-04-10 23:22:11.322][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-04-10 23:22:11.323][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-04-10 23:22:11.324][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-04-10 23:22:11.325][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:11.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:11.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:11.329][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-04-10 23:22:11.330][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-04-10 23:22:11.331][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:11.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:11.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:11.335][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-04-10 23:22:11.336][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-04-10 23:22:11.337][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:11.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:11.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:11.341][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-04-10 23:22:11.342][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-04-10 23:22:11.343][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-04-10 23:22:11.344][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:11.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:11.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:11.348][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-04-10 23:22:11.349][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-04-10 23:22:11.350][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-04-10 23:22:11.351][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:11.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:11.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:11.354][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-04-10 23:22:11.356][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-04-10 23:22:11.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:11.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:11.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:11.360][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-04-10 23:22:11.361][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-04-10 23:22:11.363][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-04-10 23:22:11.364][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:11.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:11.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:11.367][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-04-10 23:22:11.368][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-04-10 23:22:11.369][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:11.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:11.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:11.373][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-04-10 23:22:11.374][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-04-10 23:22:11.375][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-04-10 23:22:11.376][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:11.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:11.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:11.380][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-04-10 23:22:11.381][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-04-10 23:22:11.382][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-04-10 23:22:11.384][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-04-10 23:22:11.385][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-04-10 23:22:11.386][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-04-10 23:22:11.387][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:11.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:11.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:11.391][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-04-10 23:22:11.392][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-04-10 23:22:11.393][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:11.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:11.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:11.396][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-04-10 23:22:11.398][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-04-10 23:22:11.399][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:11.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:11.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:11.402][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-04-10 23:22:11.403][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-04-10 23:22:11.404][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:11.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:11.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:11.408][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-04-10 23:22:11.409][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-04-10 23:22:11.410][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:11.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:11.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:11.413][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-04-10 23:22:11.415][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-04-10 23:22:11.416][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:11.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:11.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:11.419][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-04-10 23:22:11.420][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-04-10 23:22:11.424][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-04-10 23:22:11.425][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:11.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:11.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:11.428][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-04-10 23:22:11.430][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-04-10 23:22:11.431][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-04-10 23:22:11.432][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:11.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:11.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:11.436][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-04-10 23:22:11.438][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-04-10 23:22:11.439][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-04-10 23:22:11.440][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:11.442][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-04-10 23:22:11.443][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:11.444][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-04-10 23:22:11.445][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-04-10 23:22:11.447][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-04-10 23:22:11.448][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-04-10 23:22:11.449][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-04-10 23:22:11.451][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:11.452][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-04-10 23:22:11.453][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-04-10 23:22:11.454][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:22:11.455][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:11.457][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-04-10 23:22:11.457][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-04-10 23:22:11.457][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-04-10 23:22:11.457][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-04-10 23:22:11.457][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-04-10 23:22:11.458][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-04-10 23:22:11.459][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 23:22:11.460][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 23:22:11.461][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-04-10 23:22:11.463][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 23:22:11.464][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 23:22:11.465][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-04-10 23:22:11.466][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:22:11.467][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-04-10 23:22:11.468][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-04-10 23:22:11.470][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-04-10 23:22:11.471][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:22:11.472][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-04-10 23:22:11.487][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-04-10 23:22:11.489][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-04-10 23:22:11.491][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:11.492][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-04-10 23:22:11.493][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:11.495][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-04-10 23:22:11.496][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-04-10 23:22:11.497][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-04-10 23:22:11.498][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-04-10 23:22:11.500][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-04-10 23:22:11.501][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:11.502][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-04-10 23:22:11.503][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-04-10 23:22:11.505][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:22:11.506][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:11.507][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-04-10 23:22:11.507][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-04-10 23:22:11.507][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-04-10 23:22:11.507][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-04-10 23:22:11.507][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-04-10 23:22:11.508][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-04-10 23:22:11.510][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 23:22:11.511][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 23:22:11.512][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-04-10 23:22:11.513][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 23:22:11.514][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 23:22:11.515][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-04-10 23:22:11.517][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:22:11.518][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-04-10 23:22:11.519][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-04-10 23:22:11.520][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-04-10 23:22:11.521][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:22:11.523][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-04-10 23:22:11.525][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:11.526][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-04-10 23:22:11.527][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:11.528][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-04-10 23:22:11.529][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:11.531][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-04-10 23:22:11.532][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-04-10 23:22:11.533][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-04-10 23:22:11.534][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-04-10 23:22:11.535][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-04-10 23:22:11.537][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-04-10 23:22:11.538][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-04-10 23:22:11.539][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-04-10 23:22:11.540][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:22:11.542][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:11.543][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:22:11.544][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-04-10 23:22:11.545][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 23:22:11.546][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 23:22:11.547][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-04-10 23:22:11.549][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 23:22:11.550][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 23:22:11.551][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-04-10 23:22:12.553][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:22:12.555][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-04-10 23:22:12.556][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-04-10 23:22:12.558][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-04-10 23:22:12.559][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:22:12.560][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-04-10 23:22:12.563][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:12.564][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-04-10 23:22:12.565][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:12.566][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-04-10 23:22:12.567][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:12.569][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-04-10 23:22:12.570][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-04-10 23:22:12.572][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-04-10 23:22:12.573][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-04-10 23:22:12.575][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-04-10 23:22:12.577][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-04-10 23:22:12.579][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-04-10 23:22:12.581][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-04-10 23:22:12.583][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:22:12.585][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:12.587][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:22:12.589][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-04-10 23:22:12.591][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 23:22:12.592][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 23:22:12.594][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-04-10 23:22:12.596][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 23:22:12.598][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 23:22:12.600][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-04-10 23:22:12.602][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:22:12.604][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-04-10 23:22:12.605][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-04-10 23:22:12.607][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-04-10 23:22:12.609][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:22:12.612][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-04-10 23:22:12.614][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:12.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:12.617][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:12.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:12.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:12.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:12.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:12.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:12.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:12.629][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:12.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:12.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:12.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:12.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:12.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:12.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:12.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:12.644][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:12.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:12.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:12.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:12.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:12.652][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:12.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:12.655][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:12.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:12.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:12.661][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:12.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:12.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:12.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:12.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:12.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:12.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:12.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:12.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:12.676][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:12.677][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:12.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:12.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:12.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:12.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:12.686][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:12.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:12.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:12.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:12.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:12.694][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:12.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:12.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:12.700][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:12.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:12.703][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:12.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:12.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:12.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:12.710][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[2023-04-10 23:22:12.712][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:12.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:12.716][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:12.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:12.720][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[2023-04-10 23:22:12.722][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:12.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:12.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:12.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:12.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:12.730][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:12.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:12.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:12.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:12.737][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[2023-04-10 23:22:12.739][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:12.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:12.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:12.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:12.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:12.747][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:12.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:12.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:12.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:12.754][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[2023-04-10 23:22:12.756][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:12.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:12.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:12.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:12.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:12.764][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-04-10 23:22:12.766][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-04-10 23:22:12.768][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-04-10 23:22:12.770][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-04-10 23:22:12.771][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-04-10 23:22:12.773][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-04-10 23:22:12.775][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-04-10 23:22:12.776][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-04-10 23:22:12.778][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-04-10 23:22:12.779][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-04-10 23:22:12.781][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-04-10 23:22:12.782][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-04-10 23:22:12.784][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-04-10 23:22:12.786][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-04-10 23:22:12.787][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-04-10 23:22:12.789][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-04-10 23:22:12.790][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-04-10 23:22:12.792][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-04-10 23:22:12.794][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-04-10 23:22:12.795][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-04-10 23:22:12.797][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-04-10 23:22:12.799][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-04-10 23:22:12.800][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-04-10 23:22:12.802][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-04-10 23:22:12.803][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-04-10 23:22:12.805][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-04-10 23:22:12.807][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-04-10 23:22:12.808][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-04-10 23:22:12.810][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-04-10 23:22:12.811][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-04-10 23:22:12.813][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-04-10 23:22:12.815][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-04-10 23:22:12.816][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-04-10 23:22:12.818][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-04-10 23:22:12.819][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-04-10 23:22:12.821][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-04-10 23:22:12.823][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-04-10 23:22:12.824][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-04-10 23:22:12.826][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-04-10 23:22:12.827][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-04-10 23:22:12.829][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-04-10 23:22:12.831][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-04-10 23:22:12.832][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-04-10 23:22:12.834][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-04-10 23:22:12.836][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-04-10 23:22:12.837][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-04-10 23:22:12.839][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-04-10 23:22:12.840][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-04-10 23:22:12.842][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-04-10 23:22:12.843][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-04-10 23:22:12.845][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-04-10 23:22:12.847][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-04-10 23:22:12.848][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-04-10 23:22:12.850][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-04-10 23:22:12.851][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-04-10 23:22:12.853][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-04-10 23:22:12.868][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-04-10 23:22:12.869][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-04-10 23:22:12.871][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-04-10 23:22:12.873][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-04-10 23:22:12.874][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-04-10 23:22:12.876][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-04-10 23:22:12.877][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-04-10 23:22:12.879][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-04-10 23:22:12.881][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-04-10 23:22:12.882][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-04-10 23:22:12.884][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-04-10 23:22:12.885][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-04-10 23:22:12.887][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-04-10 23:22:12.888][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-04-10 23:22:12.890][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-04-10 23:22:12.891][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-04-10 23:22:12.893][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-04-10 23:22:12.895][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-04-10 23:22:12.896][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-04-10 23:22:12.898][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-04-10 23:22:12.900][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-04-10 23:22:12.901][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-04-10 23:22:12.903][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-04-10 23:22:12.904][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-04-10 23:22:12.906][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-04-10 23:22:12.908][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-04-10 23:22:12.909][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-04-10 23:22:12.911][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-04-10 23:22:12.913][initialize] This is biodb version 1.6.1.
biodb.DEBUG[2023-04-10 23:22:12.915][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-04-10 23:22:12.916][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:12.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:12.918][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:12.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:12.920][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:12.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:12.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:12.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:12.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:12.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:12.927][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[2023-04-10 23:22:12.928][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:12.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:12.930][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:12.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:12.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:12.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:12.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:12.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:12.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:12.937][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:12.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:12.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:12.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:12.942][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:12.943][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:12.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:12.945][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:12.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:12.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:12.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:12.949][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[2023-04-10 23:22:12.951][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:12.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:12.953][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:12.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:12.955][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:12.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:12.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:12.958][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:12.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:12.960][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:12.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:12.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:12.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:12.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:12.966][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:12.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:12.968][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:12.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:12.970][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:12.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:12.972][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:12.973][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:12.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:12.975][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:12.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:12.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:12.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:12.980][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:12.981][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:12.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:12.983][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:12.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:12.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:12.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:12.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:12.988][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:12.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:12.991][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:12.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:12.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:12.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:12.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:12.996][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:12.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:12.998][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:12.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:13.000][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:13.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:13.002][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:13.004][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:13.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:13.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:13.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:13.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:13.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:13.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:13.011][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:13.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:13.014][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:13.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:13.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:13.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:13.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:13.019][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:13.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:13.022][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:13.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:13.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:13.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:13.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:13.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:13.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:13.029][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:13.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:13.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:13.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:13.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:13.035][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:13.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:13.037][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:13.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:13.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:13.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:13.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:13.042][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-04-10 23:22:13.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:13.044][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:13.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:13.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:13.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:13.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-04-10 23:22:13.051][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.16-bioc/R/library/biodbLipidmaps/definitions.yml".
biodb.DEBUG[2023-04-10 23:22:13.053][self$getDbsInfo()$define] Define connector lipidmaps.structure.
biodb.DEBUG[2023-04-10 23:22:13.055][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-04-10 23:22:13.056][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-04-10 23:22:13.058][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:13.059][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-04-10 23:22:13.060][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:13.061][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-04-10 23:22:13.062][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:13.064][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-04-10 23:22:13.065][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-04-10 23:22:13.066][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-04-10 23:22:13.068][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:13.069][self$setPropertyValue] Setting property "name" to "LIPID MAPS Structure".
biodb.DEBUG[2023-04-10 23:22:13.070][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-04-10 23:22:13.071][self$setPropertyValue] Setting property "parsing.expr" to "LM_ID".
biodb.DEBUG[2023-04-10 23:22:13.071][self$setPropertyValue] Setting property "parsing.expr" to "CHEBI_ID".
biodb.DEBUG[2023-04-10 23:22:13.071][self$setPropertyValue] Setting property "parsing.expr" to "HMDBID".
biodb.DEBUG[2023-04-10 23:22:13.071][self$setPropertyValue] Setting property "parsing.expr" to "KEGG_ID".
biodb.DEBUG[2023-04-10 23:22:13.071][self$setPropertyValue] Setting property "parsing.expr" to "PUBCHEM_COMPOUND_ID".
biodb.DEBUG[2023-04-10 23:22:13.071][self$setPropertyValue] Setting property "parsing.expr" to "SYSTEMATIC_NAME".
biodb.DEBUG[2023-04-10 23:22:13.071][self$setPropertyValue] Setting property "parsing.expr" to "MASS".
biodb.DEBUG[2023-04-10 23:22:13.071][self$setPropertyValue] Setting property "parsing.expr" to "FORMULA".
biodb.DEBUG[2023-04-10 23:22:13.071][self$setPropertyValue] Setting property "parsing.expr" to "COMMON_NAME".
biodb.DEBUG[2023-04-10 23:22:13.073][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-04-10 23:22:13.074][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-04-10 23:22:13.074][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-04-10 23:22:13.075][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-04-10 23:22:13.076][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 23:22:13.078][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 23:22:13.079][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-04-10 23:22:13.080][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-04-10 23:22:13.081][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-04-10 23:22:13.082][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-04-10 23:22:13.084][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/data/".
biodb.DEBUG[2023-04-10 23:22:13.084][self$setPropertyValue] Setting property "urls" to "https://www.lipidmaps.org/databases/lmsd/".
biodb.DEBUG[2023-04-10 23:22:13.085][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-04-10 23:22:13.086][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-04-10 23:22:13.088][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-04-10 23:22:13.089][self$setPropertyValue]
biodb.DEBUG[2023-04-10 23:22:13.090][self$getEntryFields()$define] Define field lipidmaps.structure.id.
biodb.DEBUG[2023-04-10 23:22:13.092][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-04-10 23:22:13.095][initialize] Initialize connector lipidmaps.structure.
biodb.DEBUG[2023-04-10 23:22:13.097][initialize] Register connector lipidmaps.structure with the request scheduler
biodb.DEBUG[2023-04-10 23:22:13.098][private$bdb$getRequestScheduler()$re ...] Register connector lipidmaps.structure.
biodb.DEBUG[2023-04-10 23:22:13.100][private$addConnectorRules] Create new rule for URL "www.lipidmaps.org" of connector "lipidmaps.structure".
biodb.DEBUG[2023-04-10 23:22:13.102][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2023-04-10 23:22:13.103][self$setFrequency] t=1.000000, n=1.000000
biodb.DEBUG[2023-04-10 23:22:13.105][rule$addConnector] Connector "lipidmaps.structure" is already listed in rule "www.lipidmaps.org".
biodb.DEBUG[2023-04-10 23:22:13.106][biodb$getFactory()$createConn] Creating new connector lipidmaps.structure for database class lipidmaps.structure .
biodb.INFO [2023-04-10 23:22:13.108][biodb::testThat]
biodb.INFO [2023-04-10 23:22:13.109][biodb::testThat] Running test function  test_noOtherConnNeeded  (" No other connector is needed. ").
biodb.INFO [2023-04-10 23:22:13.111][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-04-10 23:22:13.112][biodb::testThat]
biodb.DEBUG[2023-04-10 23:22:13.215][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[2023-04-10 23:22:13.220][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2023-04-10 23:22:13.222][cch$loadFileContent] Trying to load 1 files from cache: [1]: "13e15253cf65619ae7a700f5534f6030".
biodb.TRACE[2023-04-10 23:22:13.224][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-04-10 23:22:13.345][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/lipidmaps.structure-ccd4263a0c0fd7a1cb4329cb919bd54b/13e15253cf65619ae7a700f5534f6030.content".
biodb.DEBUG[2023-04-10 23:22:14.766][private$loadEntries] Creating entries from ids [2]: "LMFA00000001, LMFA00000002".
biodb.DEBUG[2023-04-10 23:22:14.768][conn$getEntryContent] Get LIPID MAPS Structure entry content(s) for 2 id(s)...
biodb.TRACE[2023-04-10 23:22:14.771][cch$loadFileContent] Trying to load 2 files from cache: [2]: "LMFA00000001, LMFA00000002".
biodb.TRACE[2023-04-10 23:22:14.773][cch$loadFileContent] file.exist = [2]: "TRUE, TRUE".
biodb.TRACE[2023-04-10 23:22:14.778][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[2023-04-10 23:22:14.779][conn$getEntryContent] 2 LIPID MAPS Structure entry content(s) loaded from cache.
biodb.DEBUG[2023-04-10 23:22:14.782][self$createEntryFromContent] Creating LIPID MAPS Structure entries from 2 content(s).
biodb.DEBUG[2023-04-10 23:22:14.784][self$createEntryFromContent] Parsing 2 LIPID MAPS Structure entries.
biodb.DEBUG[2023-04-10 23:22:14.786][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 23:22:14.788][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:14.789][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:14.798][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:14.800][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:14.801][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:14.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 23:22:14.808][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:14.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:14.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:14.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:14.815][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:14.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:14.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:14.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:14.821][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 23:22:14.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 23:22:14.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:14.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:14.827][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 23:22:14.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 23:22:14.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:14.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:14.834][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-04-10 23:22:14.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-04-10 23:22:14.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:14.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:14.840][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 23:22:14.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 23:22:14.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:14.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:14.846][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:14.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:14.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:14.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:14.852][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:14.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:14.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:14.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:14.859][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:14.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:14.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:14.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:14.865][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:14.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:14.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:14.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:14.871][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-04-10 23:22:14.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:14.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:14.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:14.878][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-04-10 23:22:14.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:14.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:14.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:14.884][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 23:22:14.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 23:22:14.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:14.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:14.891][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 23:22:14.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 23:22:14.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:14.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:14.897][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:14.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:14.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:14.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:14.904][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:14.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:14.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:14.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:14.910][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-04-10 23:22:14.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:14.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:14.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:14.917][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2023-04-10 23:22:14.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:14.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:14.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:14.922][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:14.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:14.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:14.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:14.927][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:14.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:14.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:14.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:14.932][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-04-10 23:22:14.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:14.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:14.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:14.937][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:14.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:14.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:14.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:14.942][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:14.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:14.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:14.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:14.947][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:14.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:14.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:14.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:14.952][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:14.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:14.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:14.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:14.957][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:14.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:14.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:14.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:14.962][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:14.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:14.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:14.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:14.968][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:14.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:14.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:14.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:14.973][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:14.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:14.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:14.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:14.979][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:14.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:14.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:14.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:14.985][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:14.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:14.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:14.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:14.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:14.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:14.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:14.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:14.995][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:14.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:14.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:14.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 23:22:15.000][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 23:22:15.001][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:15.003][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:15.010][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:15.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:15.012][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:15.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 23:22:15.018][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:15.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:15.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.023][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:15.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:15.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.028][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 23:22:15.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 23:22:15.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.034][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 23:22:15.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 23:22:15.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.039][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-04-10 23:22:15.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-04-10 23:22:15.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.044][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-04-10 23:22:15.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-04-10 23:22:15.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.049][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:15.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:15.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.055][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:15.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:15.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.060][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:15.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:15.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.065][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:15.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:15.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.071][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-04-10 23:22:15.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:15.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.076][self$getBiodb()$getEntryFields()$get] Asked field names are: exact.mass.
biodb.TRACE[2023-04-10 23:22:15.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:15.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.082][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 23:22:15.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 23:22:15.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.087][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 23:22:15.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 23:22:15.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.093][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:15.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:15.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.098][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:15.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:15.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.103][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-04-10 23:22:15.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:15.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.108][self$getBiodb()$getEntryFields()$get] Asked field names are: synonyms.
biodb.TRACE[2023-04-10 23:22:15.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:15.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.113][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:15.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:15.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.140][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:15.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:15.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.148][self$getBiodb()$getEntryFields()$get] Asked field names are: SYNONYMS.
biodb.TRACE[2023-04-10 23:22:15.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:15.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.156][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:15.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:15.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.164][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:15.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:15.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:15.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:15.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.178][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:15.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:15.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:15.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:15.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.193][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:15.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:15.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.200][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:15.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:15.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:15.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:15.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.214][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:15.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:15.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:15.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:15.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:15.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:15.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.237][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:15.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:15.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.243][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:15.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:15.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-04-10 23:22:15.249][self$createEntryFromContent] Accession numbers: LMFA00000001, LMFA00000002.
biodb.DEBUG[2023-04-10 23:22:15.252][conn$getBiodb()$entriesToDataframe] 2 entrie(s) to convert in data frame.
biodb.DEBUG[2023-04-10 23:22:15.254][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 23:22:15.256][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:15.257][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:15.265][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:15.267][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:15.268][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:15.269][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.TRACE[2023-04-10 23:22:15.272][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-04-10 23:22:15.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-04-10 23:22:15.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.278][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-04-10 23:22:15.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-04-10 23:22:15.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.283][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-04-10 23:22:15.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-04-10 23:22:15.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.289][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-04-10 23:22:15.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-04-10 23:22:15.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.294][private$selectFields] Fields none
biodb.TRACE[2023-04-10 23:22:15.295][private$selectFields]
biodb.TRACE[2023-04-10 23:22:15.296][private$selectFields] Fields is null: TRUE
biodb.TRACE[2023-04-10 23:22:15.298][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-04-10 23:22:15.299][private$selectFields] Fields [8]: "accession, chebi.id, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, name, lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:15.300][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:15.302][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:15.303][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.304][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.305][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 23:22:15.307][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 23:22:15.309][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.310][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.313][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:15.314][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:15.315][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.317][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.318][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:15.320][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:15.321][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.322][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.324][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:15.325][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:15.326][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.328][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.329][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 23:22:15.331][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 23:22:15.332][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.333][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.335][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:15.336][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:15.337][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.339][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.340][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:15.342][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:15.343][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.344][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.346][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:15.347][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:15.349][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.350][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.351][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 23:22:15.353][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 23:22:15.354][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.356][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.357][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:15.359][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:15.360][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.361][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.363][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:15.364][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:15.366][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.367][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.369][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:15.371][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:15.372][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.373][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.374][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 23:22:15.376][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 23:22:15.377][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.379][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.382][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:15.384][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:15.386][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.388][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.390][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:15.392][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:15.394][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.396][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.398][private$selectFields] Fields [8]: "accession, chebi.id, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, name, lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:15.400][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, name, lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:15.402][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:15.404][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:15.406][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.408][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.410][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 23:22:15.412][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 23:22:15.414][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.416][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.418][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:15.420][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:15.422][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.424][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.426][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:15.428][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:15.430][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.432][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.434][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:15.437][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:15.439][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.440][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.443][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 23:22:15.445][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 23:22:15.447][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.448][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.451][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:15.453][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:15.455][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.457][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.459][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:15.461][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:15.463][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.465][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.467][private$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[2023-04-10 23:22:15.469][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:15.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:15.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:15.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:15.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.488][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:15.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:15.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.496][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 23:22:15.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 23:22:15.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.504][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 23:22:15.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 23:22:15.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.513][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 23:22:15.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 23:22:15.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.521][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:15.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:15.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.529][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:15.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:15.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.538][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:15.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:15.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.546][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:15.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:15.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.554][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:15.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:15.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.564][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:15.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:15.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.575][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:15.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:15.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.608][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:15.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:15.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.617][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:15.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:15.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.626][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 23:22:15.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 23:22:15.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.634][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 23:22:15.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 23:22:15.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.642][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 23:22:15.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 23:22:15.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.650][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:15.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:15.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.658][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:15.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:15.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.663][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:15.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:15.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.669][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:15.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:15.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.674][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:15.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:15.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.679][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:15.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:15.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.690][private$entriesToListOfDataframes] Entry converted to data frame: [1, 8]: [accession, chebi.id, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, ...] [LMFA00000001, 178363, 10930192, 2-methoxy-12-methyloctadec-17-en-5-ynoyl anhydride, 626.491025, ...].
biodb.DEBUG[2023-04-10 23:22:15.691][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-04-10 23:22:15.692][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:15.694][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:15.701][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:15.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:15.704][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:15.705][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-04-10 23:22:15.708][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-04-10 23:22:15.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-04-10 23:22:15.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.713][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-04-10 23:22:15.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-04-10 23:22:15.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.718][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-04-10 23:22:15.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-04-10 23:22:15.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.723][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-04-10 23:22:15.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-04-10 23:22:15.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.728][private$selectFields] Fields none
biodb.TRACE[2023-04-10 23:22:15.730][private$selectFields]
biodb.TRACE[2023-04-10 23:22:15.731][private$selectFields] Fields is null: TRUE
biodb.TRACE[2023-04-10 23:22:15.732][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2023-04-10 23:22:15.733][private$selectFields] Fields [8]: "accession, chebi.id, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, name, lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:15.734][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:15.736][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:15.737][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.738][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.739][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 23:22:15.741][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 23:22:15.742][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.743][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.744][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:15.745][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:15.747][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.748][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.749][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:15.750][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:15.751][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.753][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.754][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:15.755][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:15.756][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.758][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.759][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 23:22:15.760][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 23:22:15.761][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.763][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.764][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:15.765][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:15.766][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.768][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.769][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:15.770][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:15.771][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.773][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.774][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:15.775][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:15.776][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.778][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.779][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 23:22:15.780][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 23:22:15.781][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.783][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.785][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:15.786][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:15.787][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.789][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.790][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:15.791][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:15.792][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.793][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.795][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:15.796][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:15.797][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.798][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.800][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 23:22:15.801][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 23:22:15.802][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.803][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.804][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:15.806][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:15.807][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.808][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.809][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:15.811][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:15.812][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.813][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.814][private$selectFields] Fields [8]: "accession, chebi.id, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, name, lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:15.816][private$organizeFieldsByGroups] Fields [8]: "accession, chebi.id, ncbi.pubchem.comp.id, comp.iupac.name.syst, monoisotopic.mass, formula, name, lipidmaps.structure.id"
biodb.TRACE[2023-04-10 23:22:15.817][ef$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:15.819][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:15.820][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.821][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.823][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 23:22:15.824][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 23:22:15.825][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.827][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.828][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:15.829][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:15.831][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.832][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.833][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:15.834][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:15.836][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.837][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.838][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:15.839][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:15.840][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.842][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.843][ef$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 23:22:15.844][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 23:22:15.845][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.847][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.848][ef$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:15.849][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:15.850][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.851][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.853][ef$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:15.854][ef$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:15.855][ef$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.856][ef$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.858][private$organizeFieldsByGroups] Groups [2]: "c("accession", "chebi.id", "ncbi.pubchem.comp.id", "comp.iupac.name.syst", "monoisotopic.mass", "formula", "name", "lipidmaps.structure.id"), list()"
biodb.TRACE[2023-04-10 23:22:15.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:15.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:15.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.864][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:15.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:15.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.869][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-04-10 23:22:15.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-04-10 23:22:15.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.874][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 23:22:15.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 23:22:15.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.880][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 23:22:15.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 23:22:15.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.885][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-04-10 23:22:15.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-04-10 23:22:15.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.891][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:15.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:15.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.896][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:15.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:15.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.901][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:15.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-04-10 23:22:15.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.906][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:15.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:15.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.912][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:15.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:15.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.917][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:15.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-04-10 23:22:15.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.927][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:15.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:15.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.932][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:15.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:15.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.937][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:15.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-04-10 23:22:15.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.942][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 23:22:15.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 23:22:15.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.960][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 23:22:15.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 23:22:15.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.965][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-04-10 23:22:15.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-04-10 23:22:15.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.970][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:15.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:15.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.975][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:15.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:15.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.980][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-04-10 23:22:15.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-04-10 23:22:15.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.985][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:15.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:15.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.990][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:15.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:15.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:15.995][self$getBiodb()$getEntryFields()$get] Asked field names are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:15.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: lipidmaps.structure.id.
biodb.TRACE[2023-04-10 23:22:15.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-04-10 23:22:15.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-04-10 23:22:16.004][private$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[2023-04-10 23:22:16.005][private$entriesToListOfDataframes] Converted 2 entry/ies to data frame(s).
biodb.DEBUG[2023-04-10 23:22:18.069][conn$getBiodb()$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.INFO [2023-04-10 23:22:18.073][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-04-10 23:22:18.076][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector lipidmaps.structure from the request scheduler
biodb.INFO [2023-04-10 23:22:18.078][self$deleteConn] Connector "lipidmaps.structure" deleted.
biodb.DEBUG[2023-04-10 23:22:18.079][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-04-10 23:22:18.081][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-04-10 23:22:18.083][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-04-10 23:22:18.086][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-04-10 23:22:18.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-04-10 23:22:18.089][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-04-10 23:22:18.091][FUN] Functions in observer 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 1 | SKIP 0 | PASS 163 ]

[ FAIL 0 | WARN 1 | SKIP 0 | PASS 163 ]
> 
> proc.time()
   user  system elapsed 
  23.70    0.90   30.31

Example timings

biodbLipidmaps.Rcheck/biodbLipidmaps-Ex.timings

nameusersystemelapsed
LipidmapsStructureConn3.121.224.37
LipidmapsStructureEntry0.610.020.63